Query         gi|254780804|ref|YP_003065217.1| DNA polymerase III subunit delta [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 352
No_of_seqs    150 out of 1917
Neff          8.6 
Searched_HMMs 39220
Date          Sun May 29 18:14:30 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i 254780804.hhm -d /home/congqian_1/database/cdd/Cdd.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 PRK06585 holA DNA polymerase I 100.0       0       0  471.1  37.1  342    1-346     1-342 (343)
  2 PRK07452 DNA polymerase III su 100.0       0       0  383.6  33.6  317   22-342     2-325 (326)
  3 PRK05574 holA DNA polymerase I 100.0       0       0  381.5  34.6  326    4-339     2-335 (336)
  4 PRK05629 hypothetical protein; 100.0       0       0  354.6  33.0  313   21-344    16-331 (331)
  5 COG1466 HolA DNA polymerase II 100.0       0       0  335.3  33.5  329    4-341     1-332 (334)
  6 PRK07914 hypothetical protein; 100.0 2.8E-45       0  318.6  33.3  313   20-344     4-319 (320)
  7 PRK08487 DNA polymerase III su 100.0 2.8E-45       0  318.7  30.4  322    5-341     2-325 (328)
  8 TIGR01128 holA DNA polymerase  100.0 3.2E-36   8E-41  259.0  28.1  315   21-339     2-331 (331)
  9 pfam06144 DNA_pol3_delta DNA p 100.0 6.9E-28 1.7E-32  203.8  15.7  166   24-193     1-172 (172)
 10 PRK05563 DNA polymerase III su  99.9   4E-22   1E-26  165.6  28.9  314   10-342    28-362 (541)
 11 PRK06647 DNA polymerase III su  99.9 2.4E-21 6.2E-26  160.4  27.6  313    9-343    27-360 (560)
 12 PRK06305 DNA polymerase III su  99.9 4.5E-21 1.2E-25  158.6  28.7  302   11-345    30-353 (462)
 13 TIGR02397 dnaX_nterm DNA polym  99.9 6.5E-21 1.7E-25  157.6  25.5  316   10-339    26-363 (363)
 14 PRK06674 DNA polymerase III su  99.9 1.5E-20 3.9E-25  155.1  27.3  317    9-345    27-364 (563)
 15 PRK07270 DNA polymerase III su  99.9 3.6E-20 9.3E-25  152.6  26.8  310    8-343    25-355 (557)
 16 PRK05907 hypothetical protein;  99.9 5.1E-20 1.3E-24  151.6  24.0  304    1-339     1-309 (311)
 17 PRK07764 DNA polymerase III su  99.8 4.8E-17 1.2E-21  131.9  28.4  315    9-339    26-363 (775)
 18 PRK09111 DNA polymerase III su  99.8 9.6E-17 2.5E-21  129.9  29.6  309   15-342    40-374 (600)
 19 PRK06645 DNA polymerase III su  99.8 1.3E-16 3.4E-21  129.0  27.8  309   16-343    39-373 (507)
 20 COG2812 DnaX DNA polymerase II  99.8 2.1E-16 5.3E-21  127.7  25.5  314    9-342    27-361 (515)
 21 PRK08451 DNA polymerase III su  99.8   1E-15 2.6E-20  123.2  25.8  242   10-261    26-288 (523)
 22 PRK05896 DNA polymerase III su  99.8 7.2E-16 1.8E-20  124.1  21.9  249    9-265    27-296 (613)
 23 PRK00440 rfc replication facto  99.7 3.1E-14 7.8E-19  113.4  26.1  285   10-344    28-318 (318)
 24 PRK12323 DNA polymerase III su  99.7   1E-13 2.6E-18  109.9  28.2  308   10-339    28-361 (721)
 25 PRK07133 DNA polymerase III su  99.7 8.3E-14 2.1E-18  110.5  27.5  303   16-342    36-356 (718)
 26 PRK12402 replication factor C   99.7   4E-14   1E-18  112.6  25.5  280    9-337    26-335 (337)
 27 PRK08691 DNA polymerase III su  99.7 2.4E-13 6.2E-18  107.4  26.8  308   10-339    28-356 (704)
 28 PRK07003 DNA polymerase III su  99.7 8.1E-13 2.1E-17  103.9  26.9  303   15-339    33-356 (816)
 29 PRK05648 DNA polymerase III su  99.7 1.2E-12   3E-17  102.8  27.0  303   15-339    33-356 (705)
 30 PRK07994 DNA polymerase III su  99.7 2.4E-12   6E-17  100.9  27.7  308   11-339    29-357 (643)
 31 PRK08853 DNA polymerase III su  99.7 1.3E-12 3.2E-17  102.7  26.3  301   17-339    35-356 (717)
 32 PRK06872 DNA polymerase III su  99.6   9E-12 2.3E-16   97.0  27.2  303   12-340    30-353 (696)
 33 PRK05564 DNA polymerase III su  99.6 6.2E-12 1.6E-16   98.1  26.0  290    9-340    15-312 (313)
 34 PRK08770 DNA polymerase III su  99.6 1.8E-11 4.5E-16   95.1  27.2  302   14-339    32-354 (663)
 35 KOG0989 consensus               99.5 3.3E-11 8.3E-16   93.3  23.7  275   21-321    57-345 (346)
 36 PRK13342 recombination factor   99.4 6.1E-10 1.6E-14   84.8  24.2  274    6-311    24-314 (417)
 37 PRK04195 replication factor C   99.4 2.9E-10 7.5E-15   87.0  22.3  200   21-238    40-251 (403)
 38 PRK08058 DNA polymerase III su  99.4 7.6E-09 1.9E-13   77.6  27.4  287    7-339    15-327 (329)
 39 PRK07940 DNA polymerase III su  99.4 2.5E-09 6.4E-14   80.8  23.3  296   19-340    38-394 (395)
 40 PRK05707 DNA polymerase III su  99.3 1.2E-08 3.2E-13   76.2  24.2  297    1-341     1-324 (328)
 41 pfam12169 DNA_pol3_gamma3 DNA   99.2 1.8E-09 4.7E-14   81.7  14.2  132  201-343     1-132 (143)
 42 PRK06871 DNA polymerase III su  99.1 7.9E-07   2E-11   64.3  24.9  284    9-340    13-320 (324)
 43 PRK13341 recombination factor   99.1 2.6E-07 6.7E-12   67.4  21.3  275    5-310    38-336 (726)
 44 PRK07993 DNA polymerase III su  99.1 1.6E-06   4E-11   62.3  25.1  287    7-342    12-323 (334)
 45 PRK08699 DNA polymerase III su  99.0 2.7E-06 6.9E-11   60.7  25.3  273   18-344    19-323 (325)
 46 PRK06964 DNA polymerase III su  99.0 4.7E-06 1.2E-10   59.1  24.0  269   18-340    19-339 (342)
 47 PRK07471 DNA polymerase III su  98.9 6.1E-06 1.5E-10   58.4  25.3  294    9-343    28-363 (363)
 48 COG2256 MGS1 ATPase related to  98.8 1.6E-06   4E-11   62.3  16.5  235   24-276    51-303 (436)
 49 PRK04132 replication factor C   98.8 2.7E-07   7E-12   67.3  12.4  198   98-343   662-861 (863)
 50 PRK09112 DNA polymerase III su  98.8 2.3E-05 5.9E-10   54.5  21.9  212    9-237    35-286 (352)
 51 PRK07399 DNA polymerase III su  98.7 7.8E-06   2E-10   57.7  18.8  262    7-341    13-313 (314)
 52 PRK05917 DNA polymerase III su  98.7 1.2E-05 3.1E-10   56.4  19.4  260    6-345     5-280 (290)
 53 PRK08769 DNA polymerase III su  98.6 7.8E-05   2E-09   51.0  20.9  165    9-186    16-207 (319)
 54 TIGR03420 DnaA_homol_Hda DnaA   98.6 1.2E-05 3.1E-10   56.4  16.0  180   23-211    40-226 (226)
 55 PRK06893 DNA replication initi  98.6 2.1E-05 5.3E-10   54.8  17.1  181   21-211    39-228 (229)
 56 KOG0991 consensus               98.5 1.2E-05   3E-10   56.4  15.5  238   11-261    40-285 (333)
 57 TIGR00678 holB DNA polymerase   98.5 2.4E-06 6.1E-11   61.0  10.8  165    9-182     4-214 (216)
 58 PRK05642 DNA replication initi  98.5 2.6E-05 6.6E-10   54.2  16.0  182   21-211    45-233 (234)
 59 PRK06090 DNA polymerase III su  98.4 0.00018 4.6E-09   48.6  23.2  281    8-343    14-318 (319)
 60 PRK08084 DNA replication initi  98.4 5.8E-05 1.5E-09   51.9  16.3  181   22-211    46-234 (235)
 61 PRK07276 DNA polymerase III su  98.4  0.0002 5.1E-09   48.3  18.9  157    7-178    11-189 (290)
 62 PRK05818 DNA polymerase III su  98.4 4.6E-05 1.2E-09   52.5  14.7  181   67-254    73-259 (262)
 63 COG0593 DnaA ATPase involved i  98.4 0.00017 4.2E-09   48.8  17.4  203   20-227   112-331 (408)
 64 PRK00149 dnaA chromosomal repl  98.4  0.0003 7.7E-09   47.1  20.9  202   21-227   146-365 (447)
 65 PRK08727 hypothetical protein;  98.3 0.00018 4.6E-09   48.6  16.0  183   23-214    43-232 (233)
 66 pfam00308 Bac_DnaA Bacterial d  98.3 2.7E-05 6.9E-10   54.1  11.7  169   23-195    36-216 (219)
 67 PRK08903 hypothetical protein;  98.2 0.00013 3.3E-09   49.5  14.3  180   21-213    42-226 (227)
 68 COG0470 HolB ATPase involved i  98.2 0.00055 1.4E-08   45.4  16.5  159   19-194    23-206 (325)
 69 PRK12422 chromosomal replicati  98.1  0.0011 2.8E-08   43.4  22.1  200   21-227   142-363 (455)
 70 PRK07132 DNA polymerase III su  98.0  0.0005 1.3E-08   45.7  14.4  161    6-178     6-178 (303)
 71 PRK09087 hypothetical protein;  97.9  0.0012 3.1E-08   43.1  13.9  188    6-214    32-223 (226)
 72 KOG2028 consensus               97.9  0.0026 6.6E-08   41.0  16.2  239    9-257   152-422 (554)
 73 PRK06620 hypothetical protein;  97.8  0.0017 4.2E-08   42.2  12.8  184    6-211    27-214 (214)
 74 pfam05496 RuvB_N Holliday junc  97.6  0.0032 8.3E-08   40.3  12.3  164   19-197    50-231 (234)
 75 KOG0990 consensus               97.4   0.012   3E-07   36.6  14.0  221   16-243    59-290 (360)
 76 KOG2035 consensus               97.1   0.025 6.4E-07   34.4  12.3  227   22-258    35-299 (351)
 77 KOG1969 consensus               96.9   0.034 8.8E-07   33.5  15.5  196   22-227   327-553 (877)
 78 pfam05673 DUF815 Protein of un  96.9   0.037 9.5E-07   33.3  15.1  160   24-190    56-243 (248)
 79 PRK06581 DNA polymerase III su  96.9  0.0092 2.3E-07   37.3   8.3  112    9-121     4-129 (263)
 80 TIGR02903 spore_lon_C ATP-depe  96.4    0.08   2E-06   31.1  12.0  200    8-215   166-433 (616)
 81 PRK00411 cdc6 cell division co  96.4   0.082 2.1E-06   31.0  18.2  208    9-220    45-289 (394)
 82 pfam03215 Rad17 Rad17 cell cyc  95.3    0.23 5.8E-06   28.1  13.1  173   21-193    45-260 (490)
 83 TIGR03015 pepcterm_ATPase puta  94.9    0.29 7.5E-06   27.3  15.6  133   80-212   121-265 (269)
 84 pfam01637 Arch_ATPase Archaeal  94.8    0.32 8.1E-06   27.1  12.7  155   21-185    20-221 (223)
 85 COG2607 Predicted ATPase (AAA+  94.6    0.36 9.1E-06   26.8  11.5  161   24-192    88-278 (287)
 86 PTZ00112 origin recognition co  94.5    0.36 9.2E-06   26.7  16.6  209    7-218   280-518 (650)
 87 KOG1970 consensus               94.3    0.42 1.1E-05   26.3  10.9  217   19-239   108-371 (634)
 88 PRK11361 acetoacetate metaboli  92.6    0.77   2E-05   24.6  16.9  250   20-302   165-455 (457)
 89 pfam12213 Dpoe2NT DNA polymera  90.6    0.66 1.7E-05   25.0   5.2   62  148-210     3-65  (72)
 90 smart00803 TAF TATA box bindin  87.8       2   5E-05   21.9   6.3   58  152-210     6-64  (65)
 91 COG1224 TIP49 DNA helicase TIP  85.7     1.9 4.8E-05   22.0   4.9  104  192-312   258-372 (450)
 92 TIGR02902 spore_lonB ATP-depen  85.4     2.1 5.3E-05   21.7   5.0  178   24-217    89-335 (532)
 93 PRK10365 transcriptional regul  83.3     3.2 8.2E-05   20.5  12.9  186   20-211   161-387 (441)
 94 pfam02969 TAF TATA box binding  82.5     3.4 8.8E-05   20.3   6.3   57  153-210     8-65  (66)
 95 KOG1942 consensus               82.4       2 5.2E-05   21.8   3.9   58  196-253   267-332 (456)
 96 CHL00195 ycf46 Ycf46; Provisio  81.0     3.9 9.9E-05   19.9  17.6  188    9-211     3-206 (491)
 97 PRK10923 glnG nitrogen regulat  80.5       4  0.0001   19.8  18.1  254   20-285   160-455 (469)
 98 KOG0743 consensus               77.5     4.9 0.00013   19.2   5.1   26  186-211   275-300 (457)
 99 TIGR01752 flav_long flavodoxin  75.8     3.6 9.1E-05   20.2   3.5  132   23-159     2-173 (176)
100 pfam08542 Rep_fac_C Replicatio  73.5     6.3 0.00016   18.5   4.3   75  215-328     5-80  (90)
101 PRK00080 ruvB Holliday junctio  73.2     6.4 0.00016   18.5  14.1  176   19-211    51-248 (328)
102 pfam06068 TIP49 TIP49 C-termin  72.5     5.8 0.00015   18.8   3.9  111  190-317   240-361 (395)
103 KOG1968 consensus               70.9     7.2 0.00018   18.1   7.8  188   25-227   361-571 (871)
104 CHL00181 cbbX CbbX; Provisiona  69.5     7.7  0.0002   17.9   8.9  159   24-193    62-252 (287)
105 TIGR01817 nifA Nif-specific re  69.5     6.2 0.00016   18.6   3.5   74  137-211   377-460 (574)
106 TIGR03346 chaperone_ClpB ATP-d  68.6       8  0.0002   17.8  12.3   53  126-178   313-373 (852)
107 pfam02607 B12-binding_2 B12 bi  66.0     7.3 0.00019   18.1   3.3   36  218-253     4-39  (78)
108 PRK08485 DNA polymerase III su  58.3      12 0.00031   16.6  11.3   39   81-120    53-92  (204)
109 PRK12359 flavodoxin FldB; Prov  58.1      12 0.00032   16.6   5.0   66   23-89      3-86  (169)
110 CHL00095 clpC Clp protease ATP  54.7      14 0.00036   16.2  10.4  141   27-177   206-377 (823)
111 KOG2549 consensus               53.3      15 0.00038   16.1   6.2   14  211-224   304-317 (576)
112 TIGR02370 pyl_corrinoid methyl  52.4     8.5 0.00022   17.7   1.7   31  221-251     2-32  (201)
113 TIGR02881 spore_V_K stage V sp  52.1      15 0.00039   15.9   8.9   93   95-190   127-233 (261)
114 PRK09267 flavodoxin FldA; Vali  51.2      16  0.0004   15.9   4.7   67   22-89      3-87  (169)
115 TIGR00635 ruvB Holliday juncti  50.5      16 0.00042   15.8   5.7  186   19-223    30-240 (305)
116 COG3829 RocR Transcriptional r  49.3      17 0.00043   15.7   5.1  182   19-207   266-491 (560)
117 PRK03992 proteasome-activating  48.1      18 0.00045   15.5  13.3   21  292-312   328-348 (390)
118 PRK10865 protein disaggregatio  47.5      18 0.00046   15.5  11.9   75   97-177   295-377 (857)
119 PRK10820 DNA-binding transcrip  45.4      19  0.0005   15.3  14.7  184   18-207   224-441 (513)
120 smart00427 H2B Histone H2B.     44.5      20 0.00051   15.2   5.2   60  153-213     6-67  (89)
121 pfam12002 MgsA_C MgsA AAA+ ATP  44.2      20 0.00052   15.1   6.9   65  228-310     2-66  (168)
122 COG1221 PspF Transcriptional r  40.3      23 0.00059   14.8  14.3  172   23-205   103-318 (403)
123 cd02069 methionine_synthase_B1  39.5      24 0.00061   14.7   3.2   40   78-117    48-95  (213)
124 pfam09968 DUF2202 Uncharacteri  37.3      26 0.00066   14.5   5.6   72  184-258    67-138 (162)
125 TIGR03345 VI_ClpV1 type VI sec  37.1      26 0.00066   14.4  11.5   52  126-177   327-386 (852)
126 COG2255 RuvB Holliday junction  34.6      28 0.00072   14.2   6.3  171   24-211    55-249 (332)
127 KOG2170 consensus               33.5      30 0.00075   14.1   3.4   23   95-117    92-114 (344)
128 PRK11608 pspF phage shock prot  31.6      32 0.00081   13.9  19.1  179   20-206    29-250 (325)
129 pfam04743 consensus             30.3      33 0.00085   13.7   3.0   36  158-194   112-147 (160)
130 TIGR02147 Fsuc_second hypothet  29.3      35 0.00088   13.6  11.1  154  148-322     8-178 (281)
131 PRK11388 DNA-binding transcrip  28.7      35  0.0009   13.5  17.4  183   23-211   350-569 (639)
132 COG1223 Predicted ATPase (AAA+  27.8      37 0.00094   13.4  13.5   20  166-185   181-200 (368)
133 PRK04036 DNA polymerase II sma  27.1      38 0.00096   13.4   5.1   14  182-195   251-264 (497)
134 KOG2680 consensus               26.1      39   0.001   13.2   5.4   62  191-253   254-324 (454)
135 TIGR01854 lipid_A_lpxH UDP-2,3  25.2      41   0.001   13.1   1.6   24   22-48     71-94  (241)
136 KOG2794 consensus               24.1      43  0.0011   13.0   3.3   12   20-31     42-53  (340)
137 TIGR01848 PHA_reg_PhaR polyhyd  23.5      44  0.0011   12.9   3.2   55  199-256    18-78  (109)
138 TIGR01476 chlor_syn_BchG bacte  22.6      35 0.00088   13.6   0.8   34  199-233   188-221 (295)
139 pfam04533 Herpes_U44 Herpes vi  22.5      46  0.0012   12.8   3.5   55  159-214   119-174 (211)
140 COG5095 TAF6 Transcription ini  21.7      48  0.0012   12.7   5.5   35  308-342   394-436 (450)
141 KOG2227 consensus               21.2      49  0.0012   12.6   5.1  180    8-190   164-371 (529)
142 pfam08158 NUC130_3NT NUC130/3N  20.7      50  0.0013   12.6   2.9   38  139-176     5-42  (52)
143 TIGR01818 ntrC nitrogen regula  20.2      51  0.0013   12.5   9.3  250   22-284   159-459 (471)
144 pfam08319 consensus             20.1      51  0.0013   12.5   2.7   79   96-174    51-139 (305)

No 1  
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=100.00  E-value=0  Score=471.14  Aligned_cols=342  Identities=25%  Similarity=0.384  Sum_probs=327.4

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCC
Q ss_conf             97633378875321001013847999569965899999999997335666773077620889641899999987178888
Q gi|254780804|r    1 MATIESHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLF   80 (352)
Q Consensus         1 ~~~i~~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF   80 (352)
                      |.+|+++++-..+.+.. -...+|||||+|.|++++..+.+.+.+..+.+++|++.+++++|+..|++.|.+++.|.|||
T Consensus         1 mmki~~~~~~~f~~~p~-~~~~~~LlyG~d~glv~e~~~~l~~~~~~~~~~~f~~~~l~~~el~~d~~~l~de~~t~slF   79 (343)
T PRK06585          1 MMKIKAHEIDRFLARPD-GKIRAVLLYGPDRGLVRERARRLAKSVVDDPDDPFAVVRLDGDELDADPARLEDEANTISLF   79 (343)
T ss_pred             CCCCCHHHHHHHHHCCC-CCCEEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEECHHHHHCCHHHHHHHHHCCCCC
T ss_conf             98767899999981986-47658999638764799999999997255667874157747998833999999998476876


Q ss_pred             CCCEEEEEECCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             88239998477410457898898851056560799985265431135667654311210146644200135889887543
Q gi|254780804|r   81 SKKKIILIENLSTEKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLI  160 (352)
Q Consensus        81 ~~~klIii~~~~~~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~  160 (352)
                      |++|+|+|+++++  +..+.++.++..|++++++|+.++.++++++++|++|+++.+++||||+++..++.+||.+++++
T Consensus        80 ~~~rlI~i~~~~d--~~~~~l~~~l~~~~~~~~lIi~a~~L~k~skLrk~~e~~~~~~~i~cY~d~~~~l~~~i~~~l~~  157 (343)
T PRK06585         80 GGRRLIWVRAGGK--SLAAALKALLAEPPGDAFIVIEAGDLKKGSSLRKLFETAASAAAIPCYADDERDLARLIDDELAK  157 (343)
T ss_pred             CCCEEEEEECCCH--HHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHH
T ss_conf             8984899726872--56999999981789982899973897731189999986478699950069988999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             02566756799999620012355689999997510344434888887753101221114678887641023699999998
Q gi|254780804|r  161 GQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFF  240 (352)
Q Consensus       161 ~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l  240 (352)
                      +|++|+++|+++|++.+|+|+..+.||||||++|++++++||.+||..+++++.+.++|+++||++.||..++...++++
T Consensus       158 ~g~~i~~~a~~~L~~~~g~d~~~~~~EleKL~ly~~~~~~It~edv~~~v~~~~~~~~~~l~da~l~G~~~~a~~~l~~l  237 (343)
T PRK06585        158 AGLRITPDARAYLVALLGGDRLASRNEIEKLALYAHGKGEITLDDVRAVVGDASALSLDDAADAALAGDLAGFERALDRA  237 (343)
T ss_pred             CCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             29997799999999873427999999999999984899978999999986864102499999999808999999999998


Q ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             53110001458999999999999999830256898999986089999768999999986499899999999999999995
Q gi|254780804|r  241 LASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLA  320 (352)
Q Consensus       241 ~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~  320 (352)
                      ..+|++|+.+++++.+||++|+.++.... +|.+.+++++.++||+||++++.+.+|+++|+..++.+++..|.++|+++
T Consensus       238 ~~~g~~pi~il~~l~~~~~~L~~i~~~~~-~g~~~~~ai~~~rPpiF~k~k~~~~~ql~~w~~~~L~~al~~l~~~E~~~  316 (343)
T PRK06585        238 RAEGTAPVLILRAALRHFQQLHIVRLKVE-NGKSAAQAIASLRPPVFFKRKPDFEKALRRWSLERLLRALERLQQAELDC  316 (343)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHH-HCCCHHHHHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
T ss_conf             84578779999999999999999999987-03459999986489998466999999998099999999999999999998


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf             32899989999999999999631025
Q gi|254780804|r  321 RKKKYLEKNIIFQTILYIAQTACKNN  346 (352)
Q Consensus       321 K~~~~~~~~il~~~ll~l~~~a~~~~  346 (352)
                      |+++.+++.++++++++||..|+|.+
T Consensus       317 K~~~~~~~~i~~~~ll~ia~~a~~~~  342 (343)
T PRK06585        317 RRNPALAEAIAQRALLSIAVEARRRG  342 (343)
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHCC
T ss_conf             66996599999999999999987537


No 2  
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=100.00  E-value=0  Score=383.60  Aligned_cols=317  Identities=15%  Similarity=0.183  Sum_probs=276.8

Q ss_pred             CEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCC----CHHHH
Q ss_conf             47999569965899999999997335666773077620889641899999987178888882399984774----10457
Q gi|254780804|r   22 FVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLS----TEKKV   97 (352)
Q Consensus        22 ~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~----~~k~~   97 (352)
                      |||||||+|.|++++.++.+++.+..++.++||+.+++|.|. ..+..+++++.|+||||++|+|+|+++.    ..++.
T Consensus         2 PvYll~GeE~~li~~~~~~i~~~~~~~~~~~fn~~~~dg~e~-~~~~~~l~~a~T~Pf~~~~RlVvvk~a~~~~~~~~~~   80 (326)
T PRK07452          2 PIYLYWGEDDFALNQAIEKLIDQVVDPEWKSFNYSRLDGDDA-EQAIQALNEAMTPPFGSGGRLVWLKNSPLCQGCSEEL   80 (326)
T ss_pred             CEEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCEEEECCCCC-CHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCHHH
T ss_conf             889998382899999999999960895446762378737554-2599999986278877885599983661002487889


Q ss_pred             HHHHHHHHHCCCCCEEEEEEE-CCCCCCHHHHHHHHHHHHHHHCC-CCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             898898851056560799985-26543113566765431121014-6644200135889887543025667567999996
Q gi|254780804|r   98 LDCLEEIIIKNICNHIIIIKS-NEIKKNNTLRKIAEKFTSVLAIS-CYPDNKIHLMDLIEESLLIGQKSISKEAKQILLA  175 (352)
Q Consensus        98 ~~~l~~~~~~~~~~~~li~~a-~~l~k~~kl~k~~e~~~~~~~v~-~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~  175 (352)
                      .+.++.|+.+||+++++|+.. ++++++.|++|.+++......+. +.|.+..++.+||+++++++|++|+++|+++|++
T Consensus        81 ~~~l~~~l~~~p~~t~lv~~~~~k~D~R~K~~K~l~k~~~~~ef~~~~~~~~~~l~~wi~~~~~~~g~~i~~~a~~~Lv~  160 (326)
T PRK07452         81 LAELERTLPLIPENTHLLLTNTKKPDGRLKSTKLLQKLAEEKEFSLPPPWDGEGQKQLVERTAQELGVKLTPEAAELLAE  160 (326)
T ss_pred             HHHHHHHHHCCCCCEEEEEEECCCCCHHHHHHHHHHHHEEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             99999986179997599998467632377878999840113454068865799999999999998699989999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCC-CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             20012355689999997510344-43488888775310122111467888764102369999999853110001458999
Q gi|254780804|r  176 NLGGDRIASRNELQKLSSYCLED-ILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGF  254 (352)
Q Consensus       176 ~~g~d~~~l~~EleKL~ly~~~~-~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L  254 (352)
                      ++|+|+..+.|||+||++|++++ ++||.+||+.+++ ..+.++|+|+||++.||..+|+.++++|+.+|++|+.|+++|
T Consensus       161 ~~G~dl~~l~~EleKL~ly~~~~~~~It~e~V~~lv~-~~~~~iF~L~dAi~~~~~~~Al~~l~~Ll~~ge~pi~Ila~l  239 (326)
T PRK07452        161 AVGNDSRRLYNELEKLALYAENSEKPISAEDVKALVS-NTTQNSLQLADALLQGNTGEALALIDDLLDANEPALRIVATL  239 (326)
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHC-CCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             8684399999999999986289997068999998827-764409999999986899999999999998799889999999


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
Q ss_conf             99999999999983025689899998608999976899999998649989999999999999999532899989999999
Q gi|254780804|r  255 LQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQT  334 (352)
Q Consensus       255 ~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~  334 (352)
                      ++|||.|+.++.+...|..+..++.+.++.+ ||++...+.+|+++||.++|.+++..|.++|..+|++. ++...++.+
T Consensus       240 ~~q~r~ll~vk~l~~~G~~~~~~ia~~lgi~-~P~r~~~~~~~~~~~s~~~L~~~l~~l~~~D~~iKsG~-~~~~ale~~  317 (326)
T PRK07452        240 TGQFRTWLWVKLLVESGERDVKVIAKAAGIG-NPKRIYFLRKEVQGLSSQQLLKLLPLLLDLEASLKQGA-NPINAFQDK  317 (326)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHCCC-CCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCC-CHHHHHHHH
T ss_conf             9999999999999974897799999982899-82789999999867999999999999999999864799-868999999


Q ss_pred             HHHHHHHH
Q ss_conf             99999963
Q gi|254780804|r  335 ILYIAQTA  342 (352)
Q Consensus       335 ll~l~~~a  342 (352)
                      ++++|+..
T Consensus       318 v~~lc~~~  325 (326)
T PRK07452        318 LIELCQLL  325 (326)
T ss_pred             HHHHHHHC
T ss_conf             99996043


No 3  
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=100.00  E-value=0  Score=381.51  Aligned_cols=326  Identities=16%  Similarity=0.240  Sum_probs=293.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCC
Q ss_conf             33378875321001013847999569965899999999997335666773077620889641899999987178888882
Q gi|254780804|r    4 IESHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKK   83 (352)
Q Consensus         4 i~~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~   83 (352)
                      |++.++.+.+.+++   .+||||||+|.|++++..+.+++++..++.+++++.++||.+.  +++.+.++++|+||||++
T Consensus         2 ~~~~~l~~~lkk~l---~pvyli~G~e~~li~~~~~~i~~~~~~~~~~~~n~~~~d~~~~--~~~~l~~~~~t~slf~~k   76 (336)
T PRK05574          2 LAPEQLEAHLKKGL---APVYLLYGDEPLLLQEAKDAIRAAARAQGFDERNVFTVDGSET--DWDDVLEACQSLPLFSDR   76 (336)
T ss_pred             CCHHHHHHHHHCCC---CCEEEEECCHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCC--CHHHHHHHHCCCCCCCCC
T ss_conf             89899999982789---8679998586999999999999986077865305899716869--999999986489977897


Q ss_pred             EEEEEECCCCH-----HHHHHHHHHHHHCCCCCEEEEEEE--CCCCCCHHHHHHHHH-HHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             39998477410-----457898898851056560799985--265431135667654-3112101466442001358898
Q gi|254780804|r   84 KIILIENLSTE-----KKVLDCLEEIIIKNICNHIIIIKS--NEIKKNNTLRKIAEK-FTSVLAISCYPDNKIHLMDLIE  155 (352)
Q Consensus        84 klIii~~~~~~-----k~~~~~l~~~~~~~~~~~~li~~a--~~l~k~~kl~k~~e~-~~~~~~v~~~~~~~~~l~~~i~  155 (352)
                      |+|+|++....     .+..+.+..|+.+|++++++++..  ++++++.+..+++.. .+.+.+++|++++.+++..||+
T Consensus        77 rlViv~~~~~~~~k~~~~~l~~l~~~l~~~~~~~~lvli~~~~~~d~~~k~~k~~k~l~~~~~~i~~~~~~~~~l~~~i~  156 (336)
T PRK05574         77 KLVELRLPEGLTGKKGEEALKRLEAYLENPLPHTDLLLLAPLPKLDKRKEKSAWFKALKKKAVVVEAQTPKEAELPQWIQ  156 (336)
T ss_pred             EEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCEEEEEECCCCHHHHHHHHH
T ss_conf             59999888766531137999999998707999976999987786336888899999998480799806999899999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             87543025667567999996200123556899999975103444348888877531012211146788876410236999
Q gi|254780804|r  156 ESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIM  235 (352)
Q Consensus       156 ~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~  235 (352)
                      ++++++|++|+++|+++|++++|+|+..+.||++||++|+++ ++||.+||+.+++.+.+.++|+|+||++.||..+|+.
T Consensus       157 ~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~~-~~It~~dV~~~v~~~~~~~~f~L~dai~~~~~~~al~  235 (336)
T PRK05574        157 QRLKQQGLRIDAAALQLLAERVEGNLLALAQEIEKLALLYPD-GKITLEDVEEAVPDSARFDVFDLVDAILAGKIARALR  235 (336)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCC-CCCCHHHHHHHHCCCCCCCHHHHHHHHHCCCHHHHHH
T ss_conf             999984999898999999997211399999999999983788-8878999999861643356799999998789999999


Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99998531100014589999999999999998302568989999860899997689999999864998999999999999
Q gi|254780804|r  236 LADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDH  315 (352)
Q Consensus       236 ~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~  315 (352)
                      +++++..+|++|+.|+++|.+||++|+.++.... +|.+..++++.++  +||++++.+.+|+++||..++.+++..|.+
T Consensus       236 ~l~~l~~~~~~~~~il~~l~~~~r~l~~ik~~~~-~g~~~~~i~~~l~--i~~~~~~~~~~~~~~~s~~~L~~~l~~l~~  312 (336)
T PRK05574        236 ILDGLRLEGEEPIKLLAALQREFRLLLQLKILLQ-QGYPLQQLFKELR--VWPYRRKLALRALQRLSLKQLEQAIQLLAE  312 (336)
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHHHHHHCC--CCHHHHHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             9999997799729999999999999999999987-6999999998839--999999999999972999999999999999


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999953289998999999999999
Q gi|254780804|r  316 RIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       316 ~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      +|..+|+ +.++...++.+++.+.
T Consensus       313 ~D~~iK~-~~d~~~~lEl~ll~l~  335 (336)
T PRK05574        313 TDRQIKT-DYDKDLWLELFLLSLL  335 (336)
T ss_pred             HHHHHHC-CCCCCHHHHHHHHHHH
T ss_conf             9999718-9995499999999842


No 4  
>PRK05629 hypothetical protein; Validated
Probab=100.00  E-value=0  Score=354.63  Aligned_cols=313  Identities=14%  Similarity=0.137  Sum_probs=279.4

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCC--CCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC-HHHH
Q ss_conf             847999569965899999999997335--6667730776208896418999999871788888823999847741-0457
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISI--TYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST-EKKV   97 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~--~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~-~k~~   97 (352)
                      -+||||||+|+||+++..+.+...+..  ++.++||+..++++|.  ++..+.+ +.++|||+++|+|+|++... .+..
T Consensus        16 pPvYLl~G~E~yLid~a~~~l~~~i~~~~~~~~~~n~~~~~~~e~--~~~~l~~-a~~~~~F~~~RlVvv~~~~~~~~~~   92 (331)
T PRK05629         16 PAVHLVLGEDEFLAERARINIVHDIRSSMASPDSLQVTTLKASEI--TQGELLD-ALSPSLFAEDRVVVLTNMDQAGQDA   92 (331)
T ss_pred             CCEEEEECCHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCC--CHHHHHH-HCCCCCCCCCEEEEEECHHHCCHHH
T ss_conf             997999717199999999999999986288744622588507879--9999998-7375888882599995725306447


Q ss_pred             HHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             89889885105656079998526543113566765431121014664420013588988754302566756799999620
Q gi|254780804|r   98 LDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANL  177 (352)
Q Consensus        98 ~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~  177 (352)
                      .+.+..|+.+|+++|++|+.....+++++++|.+.+.  +..++|.++.++++..||.++++++|++|+++|+++|++.+
T Consensus        93 ~d~ll~y~~~p~p~t~LV~~~~~~dkrkkl~k~l~k~--g~v~e~~~l~~~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~  170 (331)
T PRK05629         93 VDLALSAAVDPSPGTYLIVMHSGGGRSKSMVKKLEKV--AVVHDAAKLKDRDRPGWVKQEFKNHKVQVTPDVIHALLEGV  170 (331)
T ss_pred             HHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHCC--EEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             9999998419999649999845875106799998607--46986688999999999999999869997999999999996


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             01235568999999751034443488888775310122111467888764102369999999853110001458999999
Q gi|254780804|r  178 GGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQK  257 (352)
Q Consensus       178 g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~  257 (352)
                      |+|+..+.+||+||..+.  .+.||.++|+.+++.+.+.++|+|+||+..||..+|+..++.++..|++|+.|+.+|.++
T Consensus       171 G~DL~~l~~El~KL~~~~--~g~It~e~V~~~~~~~~e~~~F~l~dai~~~~~~~Al~~l~~ll~~g~~Pv~i~a~L~~~  248 (331)
T PRK05629        171 GSDLRELASAVSQLVEDT--QGNVTVEKVRAYYVGVAEVSGFDIADSACAGQVSKAVASTRRALQLGTSPVALAAALSMK  248 (331)
T ss_pred             CCCHHHHHHHHHHHHCCC--CCCCCHHHHHHHHCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             804999999999984077--998589999998269733528679999986688999999999997599929999999999


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             99999999983025689899998608999976899999998649989999999999999999532899989999999999
Q gi|254780804|r  258 FQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILY  337 (352)
Q Consensus       258 f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~  337 (352)
                      ||++.++...  .++.+..++.+.++  ++|+..+.+..|+|+||.++|.+++..|.++|..+|+++.+++..++.++++
T Consensus       249 ~r~l~~~~~~--~~~~~~~~iA~~Lg--v~P~~vkk~~~qar~~s~~~L~~a~~~l~~~D~~~Kgg~~dp~~alE~~i~~  324 (331)
T PRK05629        249 VGQIARLYST--RGRINGFELAKELG--MPPFVVEKTAKVARNWSGDAVSEAVILMADLDAAVKGQSGDPEFAIESAVRR  324 (331)
T ss_pred             HHHHHHHHHH--HCCCCHHHHHHHHC--CCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             9999999975--16999899998839--9989999999998269999999999999999998207889888999999999


Q ss_pred             HHHHHHC
Q ss_conf             9996310
Q gi|254780804|r  338 IAQTACK  344 (352)
Q Consensus       338 l~~~a~~  344 (352)
                      +|+.++|
T Consensus       325 i~~~~~~  331 (331)
T PRK05629        325 VAELARR  331 (331)
T ss_pred             HHHHHCC
T ss_conf             9998269


No 5  
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=100.00  E-value=0  Score=335.35  Aligned_cols=329  Identities=20%  Similarity=0.276  Sum_probs=289.8

Q ss_pred             CCHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCC
Q ss_conf             33378875321001013847999569965899999999997335666773077620889641899999987178888882
Q gi|254780804|r    4 IESHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKK   83 (352)
Q Consensus         4 i~~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~   83 (352)
                      +++.+.-+.+.+..  ..++|++||+|+|++++.++.+.+... +.+.+++...+++.+  .|++.+.+++.|+||||++
T Consensus         1 ~~~~~~~~~l~~~~--~~~v~ll~G~d~~l~~e~~~~i~~~~~-~~~~~~~~~~~~~~~--~~~~~~~~~~~s~~lF~~~   75 (334)
T COG1466           1 MYPEELAKHLKKKN--LMPVYLLYGEDEGLLEEAADAILKRAL-ADGFDENYSFFDDSE--LDWADLLSELESPSLFGEK   75 (334)
T ss_pred             CCHHHHHHHHHCCC--CCEEEEEECCCHHHHHHHHHHHHHHHH-HCCCCEEEEECCCCC--CCHHHHHHHHHCCCCCCCC
T ss_conf             97378999861478--751899966864689999999999734-315661345436555--6899999886276877888


Q ss_pred             EEEEEECCCCH--HHHHHHHHHHHHCCC-CCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             39998477410--457898898851056-560799985265431135667654311210146644200135889887543
Q gi|254780804|r   84 KIILIENLSTE--KKVLDCLEEIIIKNI-CNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLI  160 (352)
Q Consensus        84 klIii~~~~~~--k~~~~~l~~~~~~~~-~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~  160 (352)
                      |+|++++....  +.....+......+| .++++++.++++++..+.+++++....+..++|++++..++.+||..++++
T Consensus        76 ~~v~l~~~~~~~~~~~~~~l~~~~~~~p~~~~~l~~~~~kl~~~~~~~k~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~  155 (334)
T COG1466          76 RLVVLKNAEKKPNKDKNLALLELAALLPSTDLLLLVESNKLDKAKKLTKWLKKLAKAVVVECKPLDEAELPQWIKKRAKE  155 (334)
T ss_pred             EEEEEECCCCCCCCCHHHHHHHHHCCCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHHHH
T ss_conf             57998776545664278999998536897868999961887527787898887444734662588778899999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             02566756799999620012355689999997510344434888887753101221114678887641023699999998
Q gi|254780804|r  161 GQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFF  240 (352)
Q Consensus       161 ~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l  240 (352)
                      .|++++++|+++|++.+|+|+..+.||++||++|++++ .||.+||+.+|++..+.++|+++||++.|+..+|+.+++.+
T Consensus       156 ~~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~-~I~~~~V~~~v~~~~~~~~f~l~dail~g~~~~a~~~l~~L  234 (334)
T COG1466         156 LGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDK-EITLEDVEEVVSDVAEFNIFDLADALLKGDVKKALRLLRDL  234 (334)
T ss_pred             CCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCC-CCCHHHHHHHHCCCCCCCHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             18988999999999985882999999999998747898-66799999997364557889999999878989999999999


Q ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             53110001458999999999999999830256898999986089999768999999986499899999999999999995
Q gi|254780804|r  241 LASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLA  320 (352)
Q Consensus       241 ~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~  320 (352)
                      +.+|++|+.|++++.+||+.++.++..+. +|.+..+++..++  +|+.+++.+.++.++||.+++.+++..|.++|..+
T Consensus       235 ~~~ge~p~~il~~l~~~f~~~~~l~~~~~-~g~~~~~~~~~l~--~~~~~~~~~~~~~~r~s~~~l~~~l~~l~~~d~~~  311 (334)
T COG1466         235 LLEGEEPLKLLAALTRQFRLLLQLKALAE-KGKSLQQAAKSLG--IPYRRKKLFKKAARRLSLKQLLKALRLLAQLDYQI  311 (334)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHHHHHHCC--CCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH
T ss_conf             97699889999999999999999999997-3646999998828--92878899999998759999999999999999998


Q ss_pred             HCCCCCHHHHHHHHHHHHHHH
Q ss_conf             328999899999999999996
Q gi|254780804|r  321 RKKKYLEKNIIFQTILYIAQT  341 (352)
Q Consensus       321 K~~~~~~~~il~~~ll~l~~~  341 (352)
                      |++..++...+...++.++..
T Consensus       312 K~~~~d~~~~l~~~l~~~~~~  332 (334)
T COG1466         312 KTGYGDPVWALELFLLRLLEL  332 (334)
T ss_pred             HCCCCCCCHHHHHHHHHHHHC
T ss_conf             457766006899999998542


No 6  
>PRK07914 hypothetical protein; Reviewed
Probab=100.00  E-value=2.8e-45  Score=318.58  Aligned_cols=313  Identities=11%  Similarity=0.146  Sum_probs=271.3

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCC-CCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC-HHHH
Q ss_conf             38479995699658999999999973356-667730776208896418999999871788888823999847741-0457
Q gi|254780804|r   20 SHFVFIFYGSDKGLIFELINQFKKNISIT-YHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST-EKKV   97 (352)
Q Consensus        20 ~~~iyLi~G~d~~l~~~~~~~l~k~~~~~-~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~-~k~~   97 (352)
                      .-+||||||+|+||.+..+..+....... ...++++.++++.+.  ++..+ .++.|+||||++|+|+|++... .+..
T Consensus         4 pAPvyLi~G~E~~L~erav~~~~~~ar~~~~~~d~~~~~l~a~~~--~~~~l-~~~~spSLFae~RlVvv~~~~~~~~~~   80 (320)
T PRK07914          4 PSPLHLVLGDEELLVERAVAAVLRSARKRAGTADVPVDRLRAGDV--STYEL-AELLSPSLFAEERVVVLEAAAEAGKDA   80 (320)
T ss_pred             CCCEEEEECCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCC--CHHHH-HHHHCCCCCCCCEEEEEECCCCCCHHH
T ss_conf             998799970819999999999999998503799843466214668--88899-987186766884499983611026889


Q ss_pred             HHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCC-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             898898851056560799985265431135667654311210146644-2001358898875430256675679999962
Q gi|254780804|r   98 LDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPD-NKIHLMDLIEESLLIGQKSISKEAKQILLAN  176 (352)
Q Consensus        98 ~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~-~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~  176 (352)
                      .+.+..|+.+|+++++||+......+.+++.+.+.+.+. ..++|.+. ...+...||++.++.+|.+|+++|++.|++.
T Consensus        81 ~~~l~~yl~~p~~~t~LV~~h~gg~k~Kkl~~~lkk~ga-~v~~~~~l~k~~e~~~~v~~e~~~~g~~i~~~A~~~Lv~~  159 (320)
T PRK07914         81 VALIESAAADLPAGTVLVVVHSGGGRAKALANQLRKLGA-QVHPCARITKASERADFVRKEFRSLRVKVDDETVTALLDA  159 (320)
T ss_pred             HHHHHHHHCCCCCCEEEEEEECCCCHHHHHHHHHHHCCC-EEEECCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             999999852999980899970587404679999997699-8986556588689999999999985999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             00123556899999975103444348888877531012211146788876410236999999985311000145899999
Q gi|254780804|r  177 LGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQ  256 (352)
Q Consensus       177 ~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~  256 (352)
                      +|+|+..+.+|++||+.+.++  +||.++|+.+++++.+.+.|++.|+++.||..+|+..+..++..|++|+.|+++|.+
T Consensus       160 vG~dl~eLaae~~qL~~d~~g--~It~~~V~~~~~g~~e~~~F~vaDaa~~g~~~~AL~~lr~al~~G~~pv~i~~alA~  237 (320)
T PRK07914        160 VGSDIRELASACSQLVADTGG--AVDAAAVRRYHSGKAEVKGFDIADKAVAGDVAGAAEALRWAMMRGEPHVVLADALAE  237 (320)
T ss_pred             HHHHHHHHHHHHHHHHHCCCC--CCCHHHHHHHHCCCCEEEHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             862399999999999605799--736999999928971220999999998789999999999999749974999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
Q ss_conf             99999999998302568989999860899997689999999864998999999999999999953289998999999999
Q gi|254780804|r  257 KFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTIL  336 (352)
Q Consensus       257 ~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll  336 (352)
                      ++|.|.+++..   +| +..+..+.++.|  |++.+..+.|+++||.+.+.+++..+.++|..+|+++.++...++.+++
T Consensus       238 ~~R~la~v~~~---~~-~~~~~A~~lg~~--Pw~v~ka~~qar~ws~~~l~~ai~~la~~D~~vKg~~~dp~~alE~~v~  311 (320)
T PRK07914        238 AVHTIGRVGPL---SG-DPYRLAGQLGMP--PWRVQKAQKQARRWSRDTVATAMRVVAALNADVKGAAADADYALESAVR  311 (320)
T ss_pred             HHHHHHHHHHH---CC-CHHHHHHHHCCC--HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             99999998861---39-989999882999--5999999999817999999999999999999854788887889999999


Q ss_pred             HHHHHHHC
Q ss_conf             99996310
Q gi|254780804|r  337 YIAQTACK  344 (352)
Q Consensus       337 ~l~~~a~~  344 (352)
                      .||..+++
T Consensus       312 ~ia~~~~~  319 (320)
T PRK07914        312 RVAELVAD  319 (320)
T ss_pred             HHHHHHCC
T ss_conf             99998407


No 7  
>PRK08487 DNA polymerase III subunit delta; Validated
Probab=100.00  E-value=2.8e-45  Score=318.71  Aligned_cols=322  Identities=18%  Similarity=0.128  Sum_probs=276.5

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCE
Q ss_conf             33788753210010138479995699658999999999973356667730776208896418999999871788888823
Q gi|254780804|r    5 ESHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKK   84 (352)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~k   84 (352)
                      |-.+|=+.++++..  .++||+||+|+|+++.+.+.|.+.+..+..  ...  ++.+|  .|++.+.+.+.+.||||++|
T Consensus         2 yk~e~d~~ik~~~~--~~~ylLyG~d~fli~~y~~~I~~~~~~~~~--~~~--~yfdE--~d~~~i~~~l~~~sLFg~~k   73 (328)
T PRK08487          2 YKKELDTLLKQNKL--PNAFFLYGEDEFQIEYYAKEISSKFKPEEL--LKE--LYFDE--YNFSQAKDFLSQGSLFGGKN   73 (328)
T ss_pred             CHHHHHHHHHCCCC--CCEEEEECCCHHHHHHHHHHHHHHHCCCCH--HHH--CCCCC--CCHHHHHHHHHCCCCCCCCE
T ss_conf             76899999865988--845999568575899999999998577521--120--02265--78899999973515347774


Q ss_pred             EEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCC
Q ss_conf             999847741-0457898898851056560799985265431135667654311210146644200135889887543025
Q gi|254780804|r   85 IILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQK  163 (352)
Q Consensus        85 lIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~  163 (352)
                      +|+|++... .++..+.|..++++||+++++|+.++...++++.++.++....+++|+|++++.+++..|+++++++.|+
T Consensus        74 lv~IK~~~ki~~k~l~~Li~~~~~~~~n~~Ii~~~~~~~k~~~~~k~~~~~~~~~~V~ff~p~~~el~~~i~~~ak~~g~  153 (328)
T PRK08487         74 LLVIKTDKKIPKKELKLLIELCEKNSDNFFIIELYEASMKSSDTEKIFTPKFIAKFVRFFKPNAWEALKLLQERAKELGL  153 (328)
T ss_pred             EEEEECCCCCCCCHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCC
T ss_conf             79995777455226999999862897778999970613345678887766336237751399868999999999999199


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             66756799999620012355689999997510344434888887753101221114678887641023699999998531
Q gi|254780804|r  164 SISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLAS  243 (352)
Q Consensus       164 ~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~  243 (352)
                      +|+++|+.+|++.+|+|+..+.||||||++|   +++||.+||+.++++.++.++|+++++++.++...  ..+..++.+
T Consensus       154 ~Is~~al~~L~e~~g~dL~~~~nELeKL~l~---~~~It~edI~~l~~~~~~~~~~el~~~l~~kk~~~--~~l~~lle~  228 (328)
T PRK08487        154 DIDQNALNHLFEIQNENLYLAANELEKLAIL---DAPITLKDIDRLVFGLGSVSFEDLFLKLLKKKDIK--DDLFKLLEE  228 (328)
T ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHCCCCCCCHHHHHHHHHCCCCHH--HHHHHHHHC
T ss_conf             7799999999998596399999899999853---78788999999855766677999999997537289--999999975


Q ss_pred             HCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             10001458999999999999999830256898999986089999768999999986499899999999999999995328
Q gi|254780804|r  244 KMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKK  323 (352)
Q Consensus       244 g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~  323 (352)
                      |++++.+++.|.++|.+|+..+..+..+|......+-.++||.+...+  ..+|+++|+.++..+++..|.++|.++|++
T Consensus       229 g~n~i~li~~l~~~f~~Lf~~~~~ik~~G~~d~~~ilGy~pP~~i~~~--~~~~a~~~~~~~~~~if~~L~~~e~~~kt~  306 (328)
T PRK08487        229 GFNEIALLNSLYRFFYQLFLFFAYIKINGKPDAKEILGYKPPKQIAEN--LAKQALRLKEAQYKEIFELLLEWELELKTN  306 (328)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHCCCCCHHHHHH--HHHHHHHCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf             877899999999999999999999998099688998489998899999--999987338999999999999999998625


Q ss_pred             CCCHH-HHHHHHHHHHHHH
Q ss_conf             99989-9999999999996
Q gi|254780804|r  324 KYLEK-NIIFQTILYIAQT  341 (352)
Q Consensus       324 ~~~~~-~il~~~ll~l~~~  341 (352)
                      +..++ .++...++++.+.
T Consensus       307 ~~~~k~~~l~~~l~~iq~~  325 (328)
T PRK08487        307 SKIDKKEFLFSTLLKIQRI  325 (328)
T ss_pred             CCCCHHHHHHHHHHHHHHH
T ss_conf             5556468999999999975


No 8  
>TIGR01128 holA DNA polymerase III, delta subunit; InterPro: IPR005790    DNA polymerase III delta (holA, ) and delta prime (holB) subunits are distinct proteins encoded by separate genes. The delta prime subunit (holB) exhibits sequence homology to the tau and gamma subunits (dnaX), but the delta subunit (holA) does not demonstrate this same homology with dnaX. The delta, delta prime, gamma, chi and psi subunits form the gamma complex sub-assembly of DNA polymerase III holoenzyme, which couples ATP to assemble the ring-shaped beta subunit around DNA forming a DNA sliding clamp. Both delta and delta prime are monomeric in their native state, and they bind each other tightly to form a 1:1 complex. Neither delta nor delta prime alone binds tightly to the gamma subunit . ; GO: 0003677 DNA binding, 0003891 delta DNA polymerase activity, 0006260 DNA replication, 0043625 delta DNA polymerase complex.
Probab=100.00  E-value=3.2e-36  Score=259.05  Aligned_cols=315  Identities=19%  Similarity=0.254  Sum_probs=285.2

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCCH--HHH-
Q ss_conf             84799956996589999999999733566677307762088964189999998717888888239998477410--457-
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLSTE--KKV-   97 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~~--k~~-   97 (352)
                      .++|+++|+|.++..+....+..... ++.++++...+++.+.  ++..+.+.+.+.|||+++|+|++++....  ... 
T Consensus         2 ~~~y~~~G~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~   78 (331)
T TIGR01128         2 APVYLLYGDEPLLLEEAADAIRAAAL-PGFDEFNLFTIDGEEF--DWGQLLESAQTLPLFSERRLVELRLPSGLPGAKGK   78 (331)
T ss_pred             CCCEEECCCCHHHHHHHHHHHHHHHC-CCCHHHHHHHCCCCCC--HHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCHH
T ss_conf             64035406405578999999998740-2420122321033200--37788877641355444405665333343441002


Q ss_pred             ----HHHHHHHHHCCCCCEEEEEEEC--CCCCCHHHHHHHH-HHH--HHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHH
Q ss_conf             ----8988988510565607999852--6543113566765-431--121014664420013588988754302566756
Q gi|254780804|r   98 ----LDCLEEIIIKNICNHIIIIKSN--EIKKNNTLRKIAE-KFT--SVLAISCYPDNKIHLMDLIEESLLIGQKSISKE  168 (352)
Q Consensus        98 ----~~~l~~~~~~~~~~~~li~~a~--~l~k~~kl~k~~e-~~~--~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~  168 (352)
                          .+.+..|+..|++++.+++.++  +++++.+..+++. ...  ....++|++....++..|+..+++..|+.++.+
T Consensus        79 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (331)
T TIGR01128        79 LEHLLKALLEYLANPPPDTLLLIEAPYEKLDKRKKLTKWLKKALDNKNAEIVECKTPDEQELPRWIQARLKELGLRIDPD  158 (331)
T ss_pred             HHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCHH
T ss_conf             56679999987314676537887416301345677776766654321012310234435566899999999707865458


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCH
Q ss_conf             79999962001235568999999751034443488888775310122111467888764102369999999853110001
Q gi|254780804|r  169 AKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSH  248 (352)
Q Consensus       169 a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~  248 (352)
                      +...|+..+++|+..+.+|++||.+|.++...|+.++|..+++.+..+++|++++|++.|+..++..++..+...|+.|+
T Consensus       159 a~~~l~~~~~~~~~~~~~~~~kl~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~a~~~~~~~~~~~~l~~l~~~~~~~~  238 (331)
T TIGR01128       159 AVQLLAELVEGNLLALAQELEKLALLAPDGEPITLEDVEEAVSDSARFNVFDLTDALLEGKAARALRILDGLLGEGEEPL  238 (331)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCHHH
T ss_conf             99999987253078888777777752378766688999988533114667889998860438999999998874041157


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCC--CCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH-CCCC
Q ss_conf             458999999999999999830256--8989999860899997689999999864998999999999999999953-2899
Q gi|254780804|r  249 ALLHGFLQKFQLLEKIHIIKECSN--ISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLAR-KKKY  325 (352)
Q Consensus       249 ~il~~L~~~f~~L~~~~~~~~~~g--~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K-~~~~  325 (352)
                      .+++.+.++++.++.++.....+.  .+..+.....+ ++|+++++.+..++++|+...+.+++..+.++|..+| .+..
T Consensus       239 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~k~~~~~  317 (331)
T TIGR01128       239 ILLALLQRQLRLLLQLKILAQAGLTGKPLAQLASKLG-PIWPYRRKLALKALRRLSLAKLEQALQELAEADLQLKGTGLG  317 (331)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHC-CCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             8999999999999998887763002210889998733-655035677899985057788999999999989985024565


Q ss_pred             CHHHHHHHHHHHHH
Q ss_conf             98999999999999
Q gi|254780804|r  326 LEKNIIFQTILYIA  339 (352)
Q Consensus       326 ~~~~il~~~ll~l~  339 (352)
                      .....+..+++.+|
T Consensus       318 ~~~~~l~~l~~~~~  331 (331)
T TIGR01128       318 DPWLELELLLLKLA  331 (331)
T ss_pred             CHHHHHHHHHHHCC
T ss_conf             25789999876309


No 9  
>pfam06144 DNA_pol3_delta DNA polymerase III, delta subunit. DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalysed reaction. The delta subunit is also known as HolA.
Probab=99.96  E-value=6.9e-28  Score=203.80  Aligned_cols=166  Identities=23%  Similarity=0.350  Sum_probs=147.1

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC-----HHHHH
Q ss_conf             9995699658999999999973356667730776208896418999999871788888823999847741-----04578
Q gi|254780804|r   24 FIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST-----EKKVL   98 (352)
Q Consensus        24 yLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~-----~k~~~   98 (352)
                      |+|||+|.|++++.++++++++..++.+++++.++|+.+.  +.+.+.++++|+||||++|+|+|++...     ..+..
T Consensus         1 Yll~G~e~~l~~~~~~~i~~~~~~~~~~~~n~~~~d~~~~--~~~~i~~~~~t~slF~~~rlvii~~~~~~~~~~~~~~~   78 (172)
T pfam06144         1 YLLYGEDPFLLEETKDQILKAALDQGFEDFNYIYFDLEED--WADDVLEECETLPFFSDKRIVILNNPNLKESKLNEKLL   78 (172)
T ss_pred             CEEECCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCC--CHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCHHHH
T ss_conf             9797285999999999999997379973036898627766--69999999728998889769999776424455539999


Q ss_pred             HHHHHHHHCCCCCEEEEEEEC-CCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             988988510565607999852-6543113566765431121014664420013588988754302566756799999620
Q gi|254780804|r   99 DCLEEIIIKNICNHIIIIKSN-EIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANL  177 (352)
Q Consensus        99 ~~l~~~~~~~~~~~~li~~a~-~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~  177 (352)
                      +.+..|+.+|++++++|+.+. +.++++++.|.+++  .+..++|++++.++++.||+++++++|++|+++|+++|++++
T Consensus        79 ~~l~~~l~~~~~~~~lv~~~~~~~~~~~k~~k~l~k--~~~~i~~~~~~~~~l~~wi~~~~~~~g~~i~~~a~~~L~~~~  156 (172)
T pfam06144        79 KRLEEYLSNPPEDTLLIIEAPGKLDERKKLTKLLKK--KATVVECFTLKEEELIQWIQKRAKELGLKIEKDALQLLAEKV  156 (172)
T ss_pred             HHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHH--CCEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             999999836998728999836741367888999983--766999348987899999999999849998999999999997


Q ss_pred             HHHHHHHHHHHHHHHH
Q ss_conf             0123556899999975
Q gi|254780804|r  178 GGDRIASRNELQKLSS  193 (352)
Q Consensus       178 g~d~~~l~~EleKL~l  193 (352)
                      |+|+..+.|||+||+|
T Consensus       157 g~nl~~l~~EieKL~L  172 (172)
T pfam06144       157 ENNLLAIAQELEKLAL  172 (172)
T ss_pred             CHHHHHHHHHHHHHCC
T ss_conf             8489999999997668


No 10 
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=99.93  E-value=4e-22  Score=165.61  Aligned_cols=314  Identities=10%  Similarity=0.097  Sum_probs=249.3

Q ss_pred             HHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCC---C---------------CCCCCEEEEEEHHH--HHCCHHH
Q ss_conf             75321001013847999569965899999999997335---6---------------66773077620889--6418999
Q gi|254780804|r   10 IQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISI---T---------------YHDPFSLVVLNALE--IQKNIST   69 (352)
Q Consensus        10 ~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~---~---------------~~~~~~~~~~~~~e--~~~d~~~   69 (352)
                      +++.-++...+| .|||+|+----+...++.+.+.+.-   +               .+..+.+..+|+..  -.++...
T Consensus        28 L~n~i~~~~i~h-ayLf~GprG~GKTs~Ari~akalnc~~~~~~~pC~~C~~C~~i~~g~~~Dv~Eidaas~~gvd~iR~  106 (541)
T PRK05563         28 LKNQIINNRIAH-AYLFCGTRGTGKTSTAKIFAKAVNCLNPQDGEPCNECEICKKINEGLLMDVIEIDAASNNGVDDIRE  106 (541)
T ss_pred             HHHHHHCCCCCE-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHHHH
T ss_conf             999998499320-4530387995899999999999579998889857514889998568988736624444478899999


Q ss_pred             HHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             999871788888823999847741-0457898898851056560799985265431135667654311210146644200
Q gi|254780804|r   70 FWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKI  148 (352)
Q Consensus        70 l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~  148 (352)
                      +.+.+...|..|..|++|++.+.. ++....+|...++.||+++.+|+...+..|-   -..+  ...+..+.|.+.+..
T Consensus       107 ~~~~~~~~p~~~~~Kv~IiDEvhmls~~a~nallKtlEePp~~~~Filatte~~ki---~~tI--~SRcq~f~f~~i~~~  181 (541)
T PRK05563        107 IIENVKYPPQEGKYKVYIMDEVHMLSQGAVNAFLKTLEEPPSNVIFILATTDPQKL---PITI--LSRCQRFDFKRIKVK  181 (541)
T ss_pred             HHHHCEECCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCC---CHHH--HHHEEEEEEEECCHH
T ss_conf             99761048767870599997723389999999999985487775699976984427---4556--742135775438999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             13588988754302566756799999620012355689999997510344434888887753101221114678887641
Q gi|254780804|r  149 HLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQG  228 (352)
Q Consensus       149 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~  228 (352)
                      ++...++..+.++|+.++++|+.+++...+|+++...+-||.+.+|.+  +.||.++|..++|......+++|+++++.+
T Consensus       182 ~i~~~L~~I~~~E~i~~~~~al~lIa~~s~GsmRDAlslLdQ~is~~~--~~it~~~v~~~lG~~~~~~l~~l~~~i~~~  259 (541)
T PRK05563        182 DIFKRLRKIVEEQGIFADDKSLNLIARMSDGAMRDALSILDQAISMGD--GKVDYDDVVSMLGLVTNENLFDITDSIIEK  259 (541)
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC--CCCCHHHHHHHHCCCCHHHHHHHHHHHHCC
T ss_conf             999999999998499987899999997459977889999999998359--986699999996899989999999999858


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             02369999999853110001458999999999999999830256898999986089999768999999986499899999
Q gi|254780804|r  229 KIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRE  308 (352)
Q Consensus       229 ~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~  308 (352)
                      |..+++..++++...|.+|..++..|..+||.|+.++..     ......+.     +.......+..+++.|+...+.+
T Consensus       260 d~~~~l~~~~~i~~~G~d~~~fl~dLi~~~R~lll~k~~-----~~~~~~l~-----~~~e~~~~l~~~a~~~~~~~l~~  329 (541)
T PRK05563        260 DIEKSMEIIDDIVLSGKDIYNFIKDLITHFRNLLMVKVS-----SNPEEILD-----MSEENIELLKEQSKKIRIEEIMR  329 (541)
T ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC-----CCHHHHHC-----CCHHHHHHHHHHHHCCCHHHHHH
T ss_conf             999999999999986999999999999999999997606-----97376521-----79999999999997089999999


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             9999999999953289998999999999999963
Q gi|254780804|r  309 TLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTA  342 (352)
Q Consensus       309 ~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a  342 (352)
                      ++..|.+++.++|.+ ..+...++-.++++|+..
T Consensus       330 ~~~~L~~~~~~lk~s-~~pr~~lEm~likl~~~~  362 (541)
T PRK05563        330 CIRILQEAEEQSKWS-KQPRIYLELAIIKMCKIE  362 (541)
T ss_pred             HHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCC
T ss_conf             999999999996148-981499999999985346


No 11 
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=99.92  E-value=2.4e-21  Score=160.42  Aligned_cols=313  Identities=12%  Similarity=0.149  Sum_probs=247.3

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC------------------CCCCCEEEEEEHHH--HHCCHH
Q ss_conf             8753210010138479995699658999999999973356------------------66773077620889--641899
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT------------------YHDPFSLVVLNALE--IQKNIS   68 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~------------------~~~~~~~~~~~~~e--~~~d~~   68 (352)
                      .+++.-++..++| .|||+|+.---+...+..+.+.+.-.                  .+....+..+|+..  -.++..
T Consensus        27 ~L~nai~~~rl~H-AyLFsGprG~GKTt~ArilAk~LnC~~~~~~~PCg~C~sC~~i~~g~~~DviEidaasn~~VddIR  105 (560)
T PRK06647         27 TLKHSIEKNKIAN-AYIFSGPRGVGKTSSARAFARCLNCVNGPTIMPCGECFSCKSIDNDSSLDVIEIDGASNTSVQDVR  105 (560)
T ss_pred             HHHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHHH
T ss_conf             9999997499774-366328998789999999999965999999888878878888745999875764364548889999


Q ss_pred             HHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             9999871788888823999847741-045789889885105656079998526543113566765431121014664420
Q gi|254780804|r   69 TFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNK  147 (352)
Q Consensus        69 ~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~  147 (352)
                      .+.+.+.-.|.-|..|++||+.+.. ......+|...++.||+++++|+......+   +-..+  ...+..+.|.+...
T Consensus       106 ~l~e~v~~~P~~~~yKV~IIDEahmLt~~A~NALLKtLEEPP~~~~FILaTte~~K---I~~TI--~SRCQ~f~Fk~i~~  180 (560)
T PRK06647        106 QIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHK---LPATI--KSRCQHFNFRLLSL  180 (560)
T ss_pred             HHHHHHCCCCCCCCEEEEEECCHHHCCHHHHHHHHHHHHCCCCCEEEEEECCCHHH---CHHHH--HHHHEEEECCCCCH
T ss_conf             99998632876687069996465655999999999986348875599997799476---84899--96510410555999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             01358898875430256675679999962001235568999999751034443488888775310122111467888764
Q gi|254780804|r  148 IHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQ  227 (352)
Q Consensus       148 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~  227 (352)
                      .++...++..+.++|++++++|+.+++...+|+++...+-+|.+..|.  ++.||.++|..+++......+++|+++++.
T Consensus       181 ~~I~~~L~~I~~~E~i~~e~~AL~lIa~~a~Gs~RDalslldq~i~~~--~~~i~~~~v~~~lG~~~~~~~~~l~~~i~~  258 (560)
T PRK06647        181 EKIYEMLKKVCLEDDIKYEDEALKWIAYKSGGSVRDAYTLFDQIVSFS--NSDITLEQIRSKMGLTSDEFLEKLSSSILN  258 (560)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHCC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             999999999998679887999999999977895888999999999607--997789999998689888999999999994


Q ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHH
Q ss_conf             10236999999985311000145899999999999999983025689899998608999976899999998649989999
Q gi|254780804|r  228 GKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVR  307 (352)
Q Consensus       228 ~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~  307 (352)
                      +|..+++..++++...|.++..++..|..+||.|+.++..     ....+....        ....+..+++.|..+.+.
T Consensus       259 ~d~~~~l~~~~~i~~~G~d~~~fl~~li~~~R~lll~k~~-----~~~~~~~~~--------~~e~i~~~a~~~d~~~l~  325 (560)
T PRK06647        259 KDLKELLCVLDAIFLSGVSVEQFLLDCIEFFRELLFLKLG-----IKNEMFIGI--------KAESLPEKLLEFDLNQIE  325 (560)
T ss_pred             CCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC-----CCHHHHCCC--------CHHHHHHHHHHCCHHHHH
T ss_conf             6999999999999980999999999999999999997614-----862433123--------188999999747999999


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             999999999999532899989999999999999631
Q gi|254780804|r  308 ETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTAC  343 (352)
Q Consensus       308 ~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~  343 (352)
                      .++..+.++...++. +..++..++-+++++|+..-
T Consensus       326 ~~~~il~~~~~dl~~-s~~Pk~~lEm~llRml~l~~  360 (560)
T PRK06647        326 RAISVLLETYRDLQF-SVNPRYELEINFIKILRLKD  360 (560)
T ss_pred             HHHHHHHHHHHHCCC-CCCCHHHHHHHHHHHHHCCC
T ss_conf             999999989985786-89930889999999984678


No 12 
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=99.92  E-value=4.5e-21  Score=158.62  Aligned_cols=302  Identities=12%  Similarity=0.084  Sum_probs=240.7

Q ss_pred             HHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC-------------------CCCEEEEEEHHHH--HCCHHH
Q ss_conf             5321001013847999569965899999999997335666-------------------7730776208896--418999
Q gi|254780804|r   11 QKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH-------------------DPFSLVVLNALEI--QKNIST   69 (352)
Q Consensus        11 ~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~-------------------~~~~~~~~~~~e~--~~d~~~   69 (352)
                      ++--++...+| .|||+|+.---+...+..+.+.+.-...                   ....+..+|+..-  .+|...
T Consensus        30 ~nai~~~ri~H-AyLF~GprGtGKTT~ArilAkaLnC~~~~~~~~pCg~C~~C~~I~~g~~~DViEiDaAs~~gVddIRe  108 (462)
T PRK06305         30 KNALRFNRAAH-AYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCAICKEISSGTSLDVIEIDGASHRGIEDIRQ  108 (462)
T ss_pred             HHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHHHH
T ss_conf             99998499762-34303899859999999999996799998888988766888998638999868643553446689999


Q ss_pred             HHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             999871788888823999847741-0457898898851056560799985265431135667654311210146644200
Q gi|254780804|r   70 FWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKI  148 (352)
Q Consensus        70 l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~  148 (352)
                      +.+.+.-.|.-|..|++||+++.. .+....+|...++.||+++++|+...+..|-   -..+  ...+..+.|.+.+..
T Consensus       109 l~e~v~~~P~~~~yKVyIIDEvhmLs~~AfNALLKtLEEPP~~v~FILaTTe~~KI---p~TI--lSRCQrf~F~~i~~~  183 (462)
T PRK06305        109 INETVLFTPSKSQYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKI---PGTI--LSRCQKMHLKRIPEE  183 (462)
T ss_pred             HHHHHCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHHCCCCCEEEEEEECCHHHC---CHHH--HHHHHEEECCCCCHH
T ss_conf             99771008867750599981521179999999999861898774999981881428---5478--765402332579999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             13588988754302566756799999620012355689999997510344434888887753101221114678887641
Q gi|254780804|r  149 HLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQG  228 (352)
Q Consensus       149 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~  228 (352)
                      ++...++..+.++|+.++++|+.+++...+|+++...+-+|.+..|.+  +.||.++|..++|......+++|+++++.+
T Consensus       184 ~I~~~L~~I~~~E~i~~e~~AL~lIA~~a~GsmRDAlslLDQ~i~~~~--~~it~~~V~~~lG~v~~~~l~~L~~ai~~~  261 (462)
T PRK06305        184 TIIDKLALIAQQDGIETSREALLPIARAAQGSLRDAESLYDYVVGLFP--KSLSPDTVAKALGLLSQDSLYTLAEAITTQ  261 (462)
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC--CCCCHHHHHHHHCCCCHHHHHHHHHHHHCC
T ss_conf             999999999998399859999999999858958789999999998479--986899999986899889999999999838


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             02369999999853110001458999999999999999830256898999986089999768999999986499899999
Q gi|254780804|r  229 KIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRE  308 (352)
Q Consensus       229 ~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~  308 (352)
                      |..+++..++++...|.++..++..|..+||.|+..+     .                   ...+...++.|+.+.+.+
T Consensus       262 d~~~~l~~~~~i~~~G~d~~~~l~dL~~~~r~ll~~~-----~-------------------~~~~~~~a~~~~~e~l~~  317 (462)
T PRK06305        262 NYAQALGPVTDALNSGVAPAHFLHDLTLFFRSLLLKQ-----E-------------------NSTLSSFASKYSSEQLLE  317 (462)
T ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHC-----C-------------------HHHHHHHHHHCCHHHHHH
T ss_conf             9999999999999849999999999999999999862-----6-------------------799999987479999999


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf             9999999999953289998999999999999963102
Q gi|254780804|r  309 TLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTACKN  345 (352)
Q Consensus       309 ~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~~~  345 (352)
                      ++..|.+++.+++. +..+...++-.++++++.+.+-
T Consensus       318 ~~~il~~~~~~l~~-a~~~r~~lEm~llrl~~~~~~~  353 (462)
T PRK06305        318 IIDFLGESAKHLQL-TIFEKTFLETVIIHLIRIYQRP  353 (462)
T ss_pred             HHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHCCCC
T ss_conf             99999999999525-9974799999999999827799


No 13 
>TIGR02397 dnaX_nterm DNA polymerase III, subunits gamma and tau; InterPro: IPR012763    This entry represents the well-conserved first N-terminal domain of DnaX, approx. 365 aa. The full-length product of the dnaX gene in Escherichia coli encodes the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the extreme thermophile Thermus thermophilis.; GO: 0003887 DNA-directed DNA polymerase activity, 0005524 ATP binding, 0006260 DNA replication, 0009360 DNA polymerase III complex.
Probab=99.91  E-value=6.5e-21  Score=157.59  Aligned_cols=316  Identities=14%  Similarity=0.167  Sum_probs=249.2

Q ss_pred             HHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHH--CCCCCCCC---------------EEEEEEHHH--HHCCHHHH
Q ss_conf             753210010138479995699658999999999973--35666773---------------077620889--64189999
Q gi|254780804|r   10 IQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNI--SITYHDPF---------------SLVVLNALE--IQKNISTF   70 (352)
Q Consensus        10 ~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~--~~~~~~~~---------------~~~~~~~~e--~~~d~~~l   70 (352)
                      |++--++...+| -|||.|+----+-..++-+.|++  .++..+|+               .+..+|+.-  =.+|+.++
T Consensus        26 L~NAi~~~ri~H-AYLF~GpRGtGKTS~ARIfAKaLNC~~~~~~PCn~C~~C~~i~~g~~~DviEiDAASN~gVD~IR~l  104 (363)
T TIGR02397        26 LKNAIKNGRIAH-AYLFSGPRGTGKTSIARIFAKALNCQGPDGEPCNECESCKEINSGSSLDVIEIDAASNNGVDDIREL  104 (363)
T ss_pred             HHHHHHHCCCCC-EEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHCCCCCCEEEECCCCCCCHHHHHHH
T ss_conf             999997189662-3450285997635589999998658878778777750227765289866688648656878899999


Q ss_pred             HHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             99871788888823999847741-04578988988510565607999852654311356676543112101466442001
Q gi|254780804|r   71 WNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIH  149 (352)
Q Consensus        71 ~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~  149 (352)
                      .+.+.-.|..|-.||.||+.+.- ++....+|...++.||+++++|+-..+..|   +=..+  -..+.-..|...+..+
T Consensus       105 ~e~v~y~P~~~kYKvYIIDEVHMLS~~AFNALLKTLEEPP~hV~FIlATTE~~K---iP~TI--lSRCQrF~Fk~i~~~~  179 (363)
T TIGR02397       105 RENVKYAPSKGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHK---IPATI--LSRCQRFDFKRIPLED  179 (363)
T ss_pred             HHHHCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCHHH---CCCCC--EEECEEECCCCCCHHH
T ss_conf             873036875544335887323028656899987652279876288873487112---05540--2100031267899899


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCCHHHHHHHHHCCCCCCHHHHHHHHHH-
Q ss_conf             358898875430256675679999962001235568999999751034-443488888775310122111467888764-
Q gi|254780804|r  150 LMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLE-DILITEQHVKDIICDTHVLYIEEIINATIQ-  227 (352)
Q Consensus       150 l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~-~~~It~~dI~~~v~~~~~~~if~L~dai~~-  227 (352)
                      +.+.++..+.++|+++|++|+..++...+|.++...+=+|.+++|..+ ++.||.++|.+++|-..+..+++|+++++. 
T Consensus       180 i~~~L~~I~~~E~I~~e~~AL~~IA~~a~GS~RDAlsllDQ~~~~~~~~DG~i~~~~v~~~lGl~~~~~l~~l~~~~~~~  259 (363)
T TIGR02397       180 IVERLKKILDKEGIKIEDEALELIARAADGSMRDALSLLDQAISFGNGSDGKITYEDVNEMLGLVDEEKLIELLEAILNK  259 (363)
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHCC
T ss_conf             99999999987088317789999999628961068899999998268878865789999983577789999999997538


Q ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHH
Q ss_conf             10236999999985311000145899999999999999983025689899998608999976899999998649989999
Q gi|254780804|r  228 GKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVR  307 (352)
Q Consensus       228 ~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~  307 (352)
                      +|..+++..++++...|.+|..++..|..+++.++.++.... .+ .......     ........++.++..|+.+.+.
T Consensus       260 ~d~~~~l~~~~~~~~~G~~~~~f~~~l~~~~~~~~~~~~~~~-~~-~~~~ll~-----~~~~~~~~~~~~~~~~~~~~~~  332 (363)
T TIGR02397       260 RDTEEALKILDEILESGVDPEKFLEDLIEFLRDLLLIKKTPD-EI-EASNLLE-----ILESEQEFLKELAQKLSLEFLL  332 (363)
T ss_pred             CCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCC-CH-HHHHHHH-----HHHHHHHHHHHHHHHCCHHHHH
T ss_conf             768899999999987288898999999999999886440465-20-1224432-----2257888999999616978999


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             99999999999953289998999999999999
Q gi|254780804|r  308 ETLHKIDHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       308 ~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      +++..+.+...++|. +..+...++-++++++
T Consensus       333 ~~~~~l~~~~~~~~~-~~~~~~~lE~~l~~~~  363 (363)
T TIGR02397       333 RLIDILLEALKDLKF-SNNPRIALEMTLLRLL  363 (363)
T ss_pred             HHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHC
T ss_conf             999999877873200-0015899999999849


No 14 
>PRK06674 DNA polymerase III subunits gamma and tau; Validated
Probab=99.91  E-value=1.5e-20  Score=155.10  Aligned_cols=317  Identities=11%  Similarity=0.144  Sum_probs=244.2

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC---C---------------CCCEEEEEEHHH--HHCCHH
Q ss_conf             87532100101384799956996589999999999733566---6---------------773077620889--641899
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY---H---------------DPFSLVVLNALE--IQKNIS   68 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~---~---------------~~~~~~~~~~~e--~~~d~~   68 (352)
                      .|++.-++-..+| .|||+|+.---+...+..+.+.+.-..   .               ....+..+|+..  -.++..
T Consensus        27 ~L~nai~~~ri~H-AyLF~GprGtGKts~Ari~AkaLnC~~~~~~~pC~~C~~C~~i~~g~~~DviEiDaasn~gVd~IR  105 (563)
T PRK06674         27 TLQNALLQEKVSH-AYLFSGPRGTGKTSIAKVFAKAVNCEHAPVAEPCNECPSCLGITNGSISDVLEIDAASNNGVDEIR  105 (563)
T ss_pred             HHHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHHH
T ss_conf             9999998499650-343128998689999999999857999999887766878999855899877985255557879999


Q ss_pred             HHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             9999871788888823999847741-045789889885105656079998526543113566765431121014664420
Q gi|254780804|r   69 TFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNK  147 (352)
Q Consensus        69 ~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~  147 (352)
                      .+.+.+.-.|.-+..|++||+.+.. ......+|...++.||.++++|+...+..+   +-..+  ...+..+.|...+.
T Consensus       106 ~i~~~v~~~P~~~~yKV~IIDeah~Lt~~A~NALLKtLEEPP~~viFILaTtep~k---i~~TI--~SRCQrf~F~ri~~  180 (563)
T PRK06674        106 DIRDKVKFAPSAVEYKVYIIDEVHMLSIGAFNALLKTLEEPPGHVIFILATTEPHK---IPPTI--ISRCQRFDFRRISV  180 (563)
T ss_pred             HHHHHHCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHHCCCCCEEEEEECCCHHH---CCHHH--HHHHEEEECCCCCH
T ss_conf             99998264886787379998545637999999999986388756499996599475---84788--73310312788999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             01358898875430256675679999962001235568999999751034443488888775310122111467888764
Q gi|254780804|r  148 IHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQ  227 (352)
Q Consensus       148 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~  227 (352)
                      .++..-++..+.++|+.++++|+.+++...+|.++...+-||....|.+  +.||.++|..++|......+++|+++++.
T Consensus       181 ~~i~~rL~~I~~~E~i~~~~~aL~~Ia~~a~GsmRDAlsiLdQ~~s~~~--~~i~~~~v~~~lG~~~~~~~~~l~~~i~~  258 (563)
T PRK06674        181 NDIVERLSTVVTNEGTQVEDEALQIIARAADGGMRDALSLLDQAISFSD--ERVTTEDVLAVTGAVSQQYLGNLVECIRE  258 (563)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC--CCCCHHHHHHHHCCCCHHHHHHHHHHHHC
T ss_conf             9999999999998499987889999999769978899999999997159--97689999998689988999999999984


Q ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHH
Q ss_conf             10236999999985311000145899999999999999983025689899998608999976899999998649989999
Q gi|254780804|r  228 GKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVR  307 (352)
Q Consensus       228 ~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~  307 (352)
                      ||...++..++.++..|.+|..++.-|..+||.++.++...     +........    ..  ...+..+++.++...+.
T Consensus       259 ~d~~~~l~~~~~~~~~G~d~~~~~~dl~~~~r~~l~~k~~~-----~~~~~~~~~----~~--~~~~~~~~~~~~~~~l~  327 (563)
T PRK06674        259 NDVSRALRIIDEMMGQGKDPVRLMEDFIYYYRDMLLYQTAP-----QLEHMLERV----MV--DEQFRMLSEEMPPEVIY  327 (563)
T ss_pred             CCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCC-----CHHHHHHHH----HH--HHHHHHHHHCCCHHHHH
T ss_conf             89999999999999879999999999999999988742379-----567654311----15--49999998528999999


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf             99999999999953289998999999999999963102
Q gi|254780804|r  308 ETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTACKN  345 (352)
Q Consensus       308 ~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~~~  345 (352)
                      +++..|.++..++|.+ ..+...++-.++++|+.+...
T Consensus       328 ~~i~~l~~~~~~~r~s-~~~~~~lE~~~vkl~~~~~~~  364 (563)
T PRK06674        328 EIIHTLSKSQQEMKWT-NHPRIFLEVVMVQLCQQFMMQ  364 (563)
T ss_pred             HHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHCCCCCC
T ss_conf             9999999999996147-882188999999995303588


No 15 
>PRK07270 DNA polymerase III subunits gamma and tau; Validated
Probab=99.90  E-value=3.6e-20  Score=152.61  Aligned_cols=310  Identities=12%  Similarity=0.101  Sum_probs=237.0

Q ss_pred             HHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC---CCC---------------CEEEEEEHHH--HHCCH
Q ss_conf             887532100101384799956996589999999999733566---677---------------3077620889--64189
Q gi|254780804|r    8 KFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY---HDP---------------FSLVVLNALE--IQKNI   67 (352)
Q Consensus         8 ~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~---~~~---------------~~~~~~~~~e--~~~d~   67 (352)
                      +.|++.-++....| .|||+|+.---+...+..+.+.+.-..   .++               ..+..+++..  -.+++
T Consensus        25 ~~L~nal~~~ri~H-AyLF~GP~GtGKts~ArifAkaLnC~~~~~~~pC~~C~~C~~i~~g~~~DviEidaas~~gVd~I  103 (557)
T PRK07270         25 TTLKQAVESGKISH-AYLFSGPRGTGKTSAAKIFAKAMNCPNQVDGEPCNNCDICRDITNGSLEDVIEIDAASNNGVDEI  103 (557)
T ss_pred             HHHHHHHHCCCCCE-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHH
T ss_conf             99999998599540-44210899868999999999995799989999888777999987589997487347776788999


Q ss_pred             HHHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf             99999871788888823999847741-04578988988510565607999852654311356676543112101466442
Q gi|254780804|r   68 STFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDN  146 (352)
Q Consensus        68 ~~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~  146 (352)
                      ..+.+.+.-.|.-|..|++||+++.. ......+|...++.||+++++|+...+..+=   -..+  ...+..++|.+.+
T Consensus       104 Rei~~~~~~~P~~~~yKV~IIDEah~Ls~~A~NALLKtLEEPP~~~vFIL~Ttep~kI---l~TI--~SRCQrf~F~~i~  178 (557)
T PRK07270        104 RDIRDKSTYAPSRATYKVYIIDEVHMLSTGAFNALLKTLEEPTENVVFILATTELHKI---PATI--LSRVQRFEFKSIK  178 (557)
T ss_pred             HHHHHHHCCCCCCCCEEEEEECCHHHCCHHHHHHHHHHHHCCCCCEEEEEEECCHHHC---CHHH--HHHHHHCCCCCCC
T ss_conf             9999984238777883899971445349999998999852899876999984994759---2888--7430001088899


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             00135889887543025667567999996200123556899999975103444348888877531012211146788876
Q gi|254780804|r  147 KIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATI  226 (352)
Q Consensus       147 ~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~  226 (352)
                      ..++..-++..+.++|+.++++|+.+++...+|+++...+-||....|..+ ..||.++|..++|......+++++++++
T Consensus       179 ~~~i~~~L~~I~~~E~i~~~~~aL~~Ia~~a~G~mRdAlsiLdQ~~s~~~~-~~it~~~v~~~~G~~~~~~l~~l~~~~~  257 (557)
T PRK07270        179 TKAIREHLAWILDKEGISFEVEALNLIARRAEGGMRDALSILDQALSLSQD-NQVTIAIAEEITGSISLLALDDYVAALS  257 (557)
T ss_pred             HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC-CCCCHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             999999999999983998699999999997799687899999999971799-9767999999968998999999999998


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHH
Q ss_conf             41023699999998531100014589999999999999998302568989999860899997689999999864998999
Q gi|254780804|r  227 QGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLV  306 (352)
Q Consensus       227 ~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l  306 (352)
                      .+|...++..++.++..|.+|..++..|..+||.|+.++..    +... .          .   .....+...++.+.+
T Consensus       258 ~~d~~~~l~~~~~~~~~G~d~~~~~~dl~~~~Rdll~~k~~----~~~~-~----------~---~~~~~~~~~~~~~~l  319 (557)
T PRK07270        258 QQDATKALAALETIFDSGKSMSRFATDLLTYLRDLLIVKAG----GENT-H----------H---SAVFDENLSLSQDRI  319 (557)
T ss_pred             CCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC----CCHH-H----------H---HHHHHHHHCCCHHHH
T ss_conf             17999999999999986999999999999999976741227----7455-5----------5---676788870699999


Q ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999999532899989999999999999631
Q gi|254780804|r  307 RETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTAC  343 (352)
Q Consensus       307 ~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~  343 (352)
                      -+++..|.++...+|.+ ..+...++-+++++|+...
T Consensus       320 ~~~i~~l~~~~~~~~~~-~~p~i~lE~~~~kl~~~~~  355 (557)
T PRK07270        320 FQMIDVVTSSLPEIKKG-THPKIYAEMMTIRLAEIEQ  355 (557)
T ss_pred             HHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHCCCC
T ss_conf             99999999999997514-7812999999999853456


No 16 
>PRK05907 hypothetical protein; Provisional
Probab=99.89  E-value=5.1e-20  Score=151.64  Aligned_cols=304  Identities=12%  Similarity=0.071  Sum_probs=226.3

Q ss_pred             CCCCCHHH-HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCC
Q ss_conf             97633378-87532100101384799956996589999999999733566677307762088964189999998717888
Q gi|254780804|r    1 MATIESHK-FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSL   79 (352)
Q Consensus         1 ~~~i~~~~-~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~sl   79 (352)
                      |.-|.+.+ |.+-..++-   -.+.+| |...---.+.   ....+..+..     ..+||..+  -+..+..=-++..|
T Consensus         1 ~~~~t~~~df~~~y~e~~---~~~~vi-gs~~~edkd~---~~el~vsg~~-----~~fd~~~l--~~~~l~~wte~~gl   66 (311)
T PRK05907          1 SQSITSFKDFSQAYEEKR---PAVTVI-GSSSEEDKDI---FIELLVSGRF-----QEFDGQGL--TIQELLSWTETFGL   66 (311)
T ss_pred             CCCCHHHHHHHHHHHHCC---CEEEEE-CCCCHHHHHH---HHHHHHCCCC-----CCCCCCCC--CHHHHHHHHHHHCC
T ss_conf             975216888999998549---749995-5886456779---9999835652-----30564556--59999888986224


Q ss_pred             CCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCC-CCCHHHHHHHHHH
Q ss_conf             888239998477410-45789889885105656079998526543113566765431121014664-4200135889887
Q gi|254780804|r   80 FSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYP-DNKIHLMDLIEES  157 (352)
Q Consensus        80 F~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~-~~~~~l~~~i~~~  157 (352)
                      |+.+++|-|..+... +...+.|..|+-+|.++.++++++.+.+--+.++|.++++-..-...-|| +.+..+...+-..
T Consensus        67 FaS~evi~I~q~ekls~~~refL~~Yar~P~p~Ltl~lfttk~~~f~sL~kkl~sA~~lslfge~~~drekri~~~liqr  146 (311)
T PRK05907         67 FASKETIGIYQAEKMSSSTQEFLIRYARNPNPHLTLFLFTTKQECFSSLSKKLPSALCLSLFGEWFADRDKRIAQLLIQR  146 (311)
T ss_pred             CCCCCEEEEHHHHHHCHHHHHHHHHHHCCCCCCEEEEEEHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHH
T ss_conf             12230100031974135489999998439998579986111589999999865121216873446567888999999989


Q ss_pred             HHHCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             543025667567999996200-1235568999999751034443488888775310122111467888764102369999
Q gi|254780804|r  158 LLIGQKSISKEAKQILLANLG-GDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIML  236 (352)
Q Consensus       158 ~~~~g~~i~~~a~~~L~~~~g-~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~  236 (352)
                      +...|++.+..++..++...+ .++..+.+|++||++|.|++..|+..||+.+|......++|.|-||++++|...+..+
T Consensus       147 A~~~g~Scsl~~Aslfvkkfpqt~~~~ll~Ef~KLlC~vG~k~sle~sDIqsfv~kke~~SlWkLrDAllqRd~~~~~~l  226 (311)
T PRK05907        147 AELLGISCSLGLASLFVSKFPQTGLFEILSEFQKLLCQMGKKQSLEASDIQSFVVKKEQASLWKLRDALLRRDPVEGHSL  226 (311)
T ss_pred             HHHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHCCHHHHHHH
T ss_conf             99856675078999999976666477899999999988468540018879999955621289988889981385889999


Q ss_pred             HHHHH-HHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99985-31100014589999999999999998302568989999860899997689999999864998999999999999
Q gi|254780804|r  237 ADFFL-ASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDH  315 (352)
Q Consensus       237 l~~l~-~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~  315 (352)
                      +..|+ +.|++|+.|++.|..|+.  +.+....+.+|                -++   -+-...++.+++.+++..+..
T Consensus       227 l~aLl~d~GedpL~li~flRsQ~l--ygLrSi~e~~~----------------erk---~~~f~AyG~erl~q~l~llf~  285 (311)
T PRK05907        227 LRSLLSDMGEDPLGIINFLRSQCL--YGLRSIEEQSK----------------ERK---HRIFVAYGKERLLQALNLLFY  285 (311)
T ss_pred             HHHHHHHCCCCCHHHHHHHHHHHH--HHHHHHHHHHC----------------CCH---HHHHHHHCHHHHHHHHHHHHH
T ss_conf             999998669980899999999999--87678998615----------------311---279998468999999999999


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999953289998999999999999
Q gi|254780804|r  316 RIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       316 ~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      +|..+|.+.+++...++.++.++.
T Consensus       286 aEsliKNn~qD~i~a~EtL~irmt  309 (311)
T PRK05907        286 AESLIKNNVQDPILAVETLVIRMT  309 (311)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHH
T ss_conf             999986368772899999999871


No 17 
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=99.84  E-value=4.8e-17  Score=131.95  Aligned_cols=315  Identities=10%  Similarity=0.062  Sum_probs=240.7

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC--------------------CCCCEEEEEEHHH--HHCC
Q ss_conf             87532100101384799956996589999999999733566--------------------6773077620889--6418
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY--------------------HDPFSLVVLNALE--IQKN   66 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~--------------------~~~~~~~~~~~~e--~~~d   66 (352)
                      .|++--.+-...| -|||+|..---+......|.+.+.-..                    ...+.++.+|+..  -.+|
T Consensus        26 ~L~~Ai~~gri~H-AYLFsGprG~GKTt~ARilAkaLNC~~~~~~~PCg~C~sC~~i~~g~~~~~DviEiDAAS~~gVdd  104 (775)
T PRK07764         26 PLSTALDSGRINH-AYLFSGPRGCGKTSSARILARSLNCAQGPTSTPCGVCDSCVALAPGGPGSLDVVEIDAASHGGVDD  104 (775)
T ss_pred             HHHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCCCEEEECCCCCCCHHH
T ss_conf             9999998199763-376237888788899999999966899999898888763788863898888668731565568899


Q ss_pred             HHHHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             999999871788888823999847741-0457898898851056560799985265431135667654311210146644
Q gi|254780804|r   67 ISTFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPD  145 (352)
Q Consensus        67 ~~~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~  145 (352)
                      ...|.+.+.-.|+-+..|++||+.+.. ++...+.|.+.++.||.++++||...+.+|-   -..+  ...+..++|...
T Consensus       105 iReL~e~~~y~P~~~ryKVyIIDEaHmls~~afNALLKtLEEPP~hvvFIlaTTep~ki---p~TI--~SRcq~f~Fr~i  179 (775)
T PRK07764        105 ARELRERAFFAPAQSRYRIFIIDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKV---IGTI--RSRTHHYPFRLV  179 (775)
T ss_pred             HHHHHHHCCCCCCCCCEEEEEEECHHHHCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CHHH--HHHCCCCCCCCC
T ss_conf             99999854768767863599985354407999999988622786462799954873547---1677--641023452669


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             20013588988754302566756799999620012355689999997510344434888887753101221114678887
Q gi|254780804|r  146 NKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINAT  225 (352)
Q Consensus       146 ~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai  225 (352)
                      ...++...+...+.++|+.++++++.+++...++.++...+-||.|..++++ +.||.+++..+++.....-+.++++++
T Consensus       180 ~~~~~~~~l~~i~~~E~i~~~~~al~li~r~~~Gs~RDalS~ldQl~a~~~~-~~v~~~~a~~llG~~~~~~l~~~~~al  258 (775)
T PRK07764        180 PPGTMRPYLERICAQEGVVVDDAVLPLVIRAGGGSPRDTLSVLDQLLAGAGD-DGVTYERAVALLGVTDVALIDDAVDAL  258 (775)
T ss_pred             CHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCC-CCEEHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             9999999999999983998798999999998289667689999999840488-841099999985888589999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHH
Q ss_conf             64102369999999853110001458999999999999999830256898999986089999768999999986499899
Q gi|254780804|r  226 IQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNL  305 (352)
Q Consensus       226 ~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~  305 (352)
                      ..+|...++..+++++..|.+|..+..-|..++|.|+.++..-+.       +-..+ .....-+...+..|++.++...
T Consensus       259 ~~~d~~~~~~~v~~~~~~G~d~~rf~~dLl~~~Rdl~~~~~~~~~-------~~~~l-~~~~~~~~~~~~~qa~~~~~~~  330 (775)
T PRK07764        259 AAGDGAALFGVVDRVIEAGHDPRRFAEDLLERFRDLIVLQAVPDA-------AERGL-VDAPEDVLDRMREQAARLGAAE  330 (775)
T ss_pred             HCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCHH-------HHHCC-CCCCHHHHHHHHHHHHHCCHHH
T ss_conf             837899999999999982878899999999999999999861066-------65125-5688889999999998609999


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             9999999999999953289998999999999999
Q gi|254780804|r  306 VRETLHKIDHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       306 l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      |.++...+...-..++. ...+...|+-++.++.
T Consensus       331 l~r~a~~~~~~l~~m~g-a~~prl~le~~~ar~l  363 (775)
T PRK07764        331 LTRYAEVVNAGLGEMRG-ATSPRLLLELLCARLL  363 (775)
T ss_pred             HHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHC
T ss_conf             99999999999987427-8975689999999870


No 18 
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=99.84  E-value=9.6e-17  Score=129.94  Aligned_cols=309  Identities=10%  Similarity=0.084  Sum_probs=239.1

Q ss_pred             HHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC-----------------------CCCCEEEEEEHHH--HHCCHHH
Q ss_conf             00101384799956996589999999999733566-----------------------6773077620889--6418999
Q gi|254780804|r   15 KNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY-----------------------HDPFSLVVLNALE--IQKNIST   69 (352)
Q Consensus        15 ~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~-----------------------~~~~~~~~~~~~e--~~~d~~~   69 (352)
                      +....+| -|||.|.----+...++.+.+.+.-..                       +....+..+|+.-  -.+|...
T Consensus        40 ~~~~~~~-a~l~~g~rg~gktt~ari~a~~lnc~~~~~~~~~~~~~c~~c~~c~~i~~~~~~d~~e~daas~~~v~~~r~  118 (600)
T PRK09111         40 ETGRIAQ-AFMLTGVRGVGKTTTARILARALNYKGPDGVGGPTIDPCGVGEHCQAIMEGRHVDVIEMDAASHTGVDDIRE  118 (600)
T ss_pred             HCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHH
T ss_conf             7298420-476457898789999999999966988766689988989988658988668998758851554578889999


Q ss_pred             HHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             999871788888823999847741-0457898898851056560799985265431135667654311210146644200
Q gi|254780804|r   70 FWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKI  148 (352)
Q Consensus        70 l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~  148 (352)
                      +++.+.-.|.-|-.|+.||+.+.- ++....+|...++.||+++.+|+-..+..|--   -.  -...+.-+.+...+..
T Consensus       119 ~~~~~~~~p~~~~~kv~iidevhmls~~afnallktleepp~~~~fi~att~~~k~p---~t--i~src~~f~~~~~~~~  193 (600)
T PRK09111        119 IIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVP---VT--VLSRCQRFDLRRIEAE  193 (600)
T ss_pred             HHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCHHHCC---HH--HHHHHHEECCCCCCHH
T ss_conf             998605388777546999600110579999999987625986549999628534375---89--9854412010579999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             13588988754302566756799999620012355689999997510344434888887753101221114678887641
Q gi|254780804|r  149 HLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQG  228 (352)
Q Consensus       149 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~  228 (352)
                      ++...+...+.++|++++++|+.+++...+|.++...+=||....|.  .+.|+.++|..++|......+++|+++++.|
T Consensus       194 ~~~~~l~~i~~~e~~~~~~~al~~ia~~a~GS~RDaLSlLDQai~~~--~~~i~~~~v~~mLGl~d~~~i~~Ll~~i~~G  271 (600)
T PRK09111        194 VLAAHLARIAEKEGVEVEPDALALIARAAEGSVRDGLSLLDQAIAHG--AGEVTAEQVRDMLGLADRARVIDLFEALMRG  271 (600)
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHCC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHCC
T ss_conf             99999999998607686677999999974898421899999999727--9875699999986887677899999999855


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             02369999999853110001458999999999999999830256898999986089999768999999986499899999
Q gi|254780804|r  229 KIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRE  308 (352)
Q Consensus       229 ~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~  308 (352)
                      |..+++..++++...|.+|..++..|...++.+..++....    ....    .  .+-..+...+...++..+...|.+
T Consensus       272 d~~~aL~~~~~l~~~G~Dp~~iL~dLLeilh~is~~k~~~~----~~~~----~--~lse~E~~~i~~LA~~ls~~~L~~  341 (600)
T PRK09111        272 DVAAALAEFRAQYDAGADPVVVLRDLAEFVHLVTRLKIVPD----AAED----P--SLSEDERTRGAEFAKKLSMRVLSR  341 (600)
T ss_pred             CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCC----CCCC----C--CCCHHHHHHHHHHHHCCCHHHHHH
T ss_conf             86889999999998598999999999999999999974675----1014----5--689999999999985089999999


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             9999999999953289998999999999999963
Q gi|254780804|r  309 TLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTA  342 (352)
Q Consensus       309 ~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a  342 (352)
                      ..+.+...-..++. ...+...++-+++++|..+
T Consensus       342 ~wQilLkg~~El~~-a~~p~~alEM~LiRL~~~~  374 (600)
T PRK09111        342 MWQMLLKGIAEVQG-APRPLAAAEMVLIRLAHAA  374 (600)
T ss_pred             HHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHC
T ss_conf             99999989999730-8983586999999999723


No 19 
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=99.83  E-value=1.3e-16  Score=128.99  Aligned_cols=309  Identities=14%  Similarity=0.118  Sum_probs=236.5

Q ss_pred             HHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC----------------------CCCCEEEEEEHHH--HHCCHHHHH
Q ss_conf             0101384799956996589999999999733566----------------------6773077620889--641899999
Q gi|254780804|r   16 NLFLSHFVFIFYGSDKGLIFELINQFKKNISITY----------------------HDPFSLVVLNALE--IQKNISTFW   71 (352)
Q Consensus        16 ~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~----------------------~~~~~~~~~~~~e--~~~d~~~l~   71 (352)
                      ....+| .|||+|+----+...++.+.+.+.-..                      +....+..+|+..  -.+|...++
T Consensus        39 ~~~~~~-aylf~G~rG~GKTt~Ari~ak~lnc~~~~~~~~~~~~c~~c~~c~~i~~~~~~dv~EiDaas~~gv~~ir~l~  117 (507)
T PRK06645         39 NDRLAG-GYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEKCTNCISFNNHNHPDIIEIDAASKTSVDDIRRII  117 (507)
T ss_pred             CCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHH
T ss_conf             399663-4774587997889999999999679998888998888888767899865899985996378888889999998


Q ss_pred             HHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHH
Q ss_conf             9871788888823999847741-045789889885105656079998526543113566765431121014664420013
Q gi|254780804|r   72 NEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHL  150 (352)
Q Consensus        72 ~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l  150 (352)
                      +.+...|..|..|+++++.+.. ++....+|...++.||+++.+|+...+..|-   -..  -...+....+.+.+..++
T Consensus       118 ~~~~~~p~~~~~kv~iidE~hmls~~a~nallktlEepp~~~~Fi~atte~~ki---p~t--i~srcq~f~~~~i~~~~i  192 (507)
T PRK06645        118 ESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKI---PAT--IISRCQRYDLRRLSFEEI  192 (507)
T ss_pred             HHCCCCCCCCCEEEEEECCHHHCCHHHHHHHHHHHHCCCCCEEEEEECCCHHHC---CHH--HHHHCEEEEEECCCHHHH
T ss_conf             635517876743589952142248999999999742786443899974853648---378--885432787545997999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             588988754302566756799999620012355689999997510-3444348888877531012211146788876410
Q gi|254780804|r  151 MDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYC-LEDILITEQHVKDIICDTHVLYIEEIINATIQGK  229 (352)
Q Consensus       151 ~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~-~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~  229 (352)
                      ...++..+.++|+.++++|+.+++...+|.++...+-||.-..|. ++++.|+.++|.+++|-.-...+++|+++++.||
T Consensus       193 ~~~l~~i~~~E~~~~~~~al~~ia~~a~Gs~RDalslldqai~~~~~~~~~I~~~~V~~MLGl~Drs~lidL~e~Il~Gd  272 (507)
T PRK06645        193 FKLLEYITKQENLKADIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQMLGLVDLSVIIEFVEYIIERE  272 (507)
T ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCC
T ss_conf             99999999976877778999999985599867899999999997548987026999999838998567999999998299


Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             23699999998531100014589999999999999998302568989999860899997689999999864998999999
Q gi|254780804|r  230 IYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRET  309 (352)
Q Consensus       230 ~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~  309 (352)
                      ..+|+..++.+...|.+|..++.-|..-+..+.+++..   .+.+.         .+.-.+.+.+..-+...+.+.|...
T Consensus       273 ~~kaL~~l~~iy~~G~Dp~~iL~DLLeiih~i~~ik~l---~~~~~---------~l~ese~~ri~~is~ki~~~~L~lf  340 (507)
T PRK06645        273 TEKAINLINKLYGSSVNLEIFIESVSDFIAYLNKVKML---PNYSL---------PIYESFNDRTKSILDKISLPHLSIL  340 (507)
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHC---CCCCC---------CCCHHHHHHHHHHHHHCCHHHHHHH
T ss_conf             99999999999984999999999999999999999747---87545---------6553079999999983899999999


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             9999999999532899989999999999999631
Q gi|254780804|r  310 LHKIDHRIHLARKKKYLEKNIIFQTILYIAQTAC  343 (352)
Q Consensus       310 l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~  343 (352)
                      -+.+...=..++. ...+...++-+++++|..+.
T Consensus       341 WQillKg~eEL~~-apnp~~alEM~LIRL~y~~~  373 (507)
T PRK06645        341 WQIYNKGVQEIKI-SYNQLTETEMLVIKSIYSTS  373 (507)
T ss_pred             HHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHHCC
T ss_conf             9999857999852-89888889999999998477


No 20 
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=99.81  E-value=2.1e-16  Score=127.70  Aligned_cols=314  Identities=11%  Similarity=0.103  Sum_probs=239.8

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC------------------CCCCEEEEEEHH--HHHCCHH
Q ss_conf             87532100101384799956996589999999999733566------------------677307762088--9641899
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY------------------HDPFSLVVLNAL--EIQKNIS   68 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~------------------~~~~~~~~~~~~--e~~~d~~   68 (352)
                      .|++.-++....|. |||.|+.--.+....+.+.+.+.-..                  +.-..++.+|+.  .-.+|..
T Consensus        27 ~L~nal~~~ri~hA-YlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck~I~~g~~~DviEiDaASn~gVddiR  105 (515)
T COG2812          27 TLSNALENGRIAHA-YLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIR  105 (515)
T ss_pred             HHHHHHHHCCCHHH-HHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHCCCHHHHH
T ss_conf             99999980842333-65137777671049999999956889877772253166686514886410113644454867999


Q ss_pred             HHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             9999871788888823999847741-045789889885105656079998526543113566765431121014664420
Q gi|254780804|r   69 TFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNK  147 (352)
Q Consensus        69 ~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~  147 (352)
                      .+.+.+...|..|..|+++|+.+.- ++....+|..-++.||+++.+|+-..+..|-   -..+  ...+....|...+.
T Consensus       106 ~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Ki---p~TI--lSRcq~f~fkri~~  180 (515)
T COG2812         106 EIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKI---PNTI--LSRCQRFDFKRLDL  180 (515)
T ss_pred             HHHHHHCCCCCCCCCEEEEEECHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCC---CHHH--HHCCCCCCCCCCCH
T ss_conf             999872468866664189983187643788888751113686674899853886768---4045--52122022257999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             01358898875430256675679999962001235568999999751034443488888775310122111467888764
Q gi|254780804|r  148 IHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQ  227 (352)
Q Consensus       148 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~  227 (352)
                      .++...+...+.++|++++++|+..++...+|.++...+=++-+..+..  +.||.++|..+++......+.+++++++.
T Consensus       181 ~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~Gs~RDalslLDq~i~~~~--~~It~~~v~~~lG~~~~~~~~~~~~~i~~  258 (515)
T COG2812         181 EEIAKHLAAILDKEGINIEEDALSLIARAAEGSLRDALSLLDQAIAFGE--GEITLESVRDMLGLTDIEKLLSLLEAILK  258 (515)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHCCC--CCCCHHHHHHHHCCCCHHHHHHHHHHHHC
T ss_conf             9999999999874487547999999999828974567778999997067--76569999999688778999999999982


Q ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHH
Q ss_conf             10236999999985311000145899999999999999983025689899998608999976899999998649989999
Q gi|254780804|r  228 GKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVR  307 (352)
Q Consensus       228 ~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~  307 (352)
                      +|...++..++.+...|.+|..++..+..+++.++.+.....    ... ...      ....-..+..+...|+...+.
T Consensus       259 ~d~~~~~~~~~~l~~~G~~~~~~l~dl~~~~~~~l~~~~~~~----~~~-~~~------~~~~~~~~~~~a~~~~~~~l~  327 (515)
T COG2812         259 GDAKEALRLINELIEEGKDPEAFLEDLLNFLRDLLLFKQTVP----NEL-QLN------TTEIEERTKELASQISVLNLQ  327 (515)
T ss_pred             CCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCC----CHH-HCC------CHHHHHHHHHHHHHCCHHHHH
T ss_conf             279999999999998274899999999999999999986054----032-101------014669999999855889999


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             99999999999953289998999999999999963
Q gi|254780804|r  308 ETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTA  342 (352)
Q Consensus       308 ~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a  342 (352)
                      +....+...-..++. +..+...++-++++++..+
T Consensus       328 ~~~~~~~~~~~e~~~-s~~~~~~~E~~lirl~~~~  361 (515)
T COG2812         328 RLYQLLLPGLKELKR-SLSPRLGLEMTLIRLLEAA  361 (515)
T ss_pred             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHC
T ss_conf             999999999998613-8662579999999987503


No 21 
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=99.79  E-value=1e-15  Score=123.15  Aligned_cols=242  Identities=15%  Similarity=0.160  Sum_probs=188.7

Q ss_pred             HHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC---C---------------CCCEEEEEEHHHH--HCCHHH
Q ss_conf             7532100101384799956996589999999999733566---6---------------7730776208896--418999
Q gi|254780804|r   10 IQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY---H---------------DPFSLVVLNALEI--QKNIST   69 (352)
Q Consensus        10 ~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~---~---------------~~~~~~~~~~~e~--~~d~~~   69 (352)
                      ++.--.+...+| .|||+|+.---+...+..+.+.+.-..   .               ....+..+|+..-  .+++..
T Consensus        26 L~nAi~~~Rl~H-AYLFsGPrGvGKTt~ArifAkaLnC~~~~~~~PCg~C~sC~~i~~g~hpDViEiDaasn~gID~IRe  104 (523)
T PRK08451         26 LSLALDNNRLAH-AYLFSGLRGSGKTSSARIFSRALVCEQGPSSTPCGTCAQCQAALEGRHIDIIEMDAASNRGIDDIRN  104 (523)
T ss_pred             HHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHHHH
T ss_conf             999998599671-5875789986889999999999759999998988878889998648999855105533368999999


Q ss_pred             HHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             999871788888823999847741-0457898898851056560799985265431135667654311210146644200
Q gi|254780804|r   70 FWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKI  148 (352)
Q Consensus        70 l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~  148 (352)
                      +.+.+...|..|..|++||+.+.. ......+|...++.||+++++|+...+..+   +-..+  ...+..+.|.+....
T Consensus       105 Lie~~~~~P~~gryKV~IIDEah~Lt~~A~NALLKTLEEPP~~vvFILaTTep~K---Lp~TI--lSRCQ~f~Fk~I~~~  179 (523)
T PRK08451        105 LIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLK---LPATI--LSRTQHFRFKQIPQN  179 (523)
T ss_pred             HHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCEEEEECCCHHH---CHHHH--HHHHHCCCCCCCCHH
T ss_conf             9997235886797279998260304899999999970389878379997599476---84888--742031103379999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             13588988754302566756799999620012355689999997510344434888887753101221114678887641
Q gi|254780804|r  149 HLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQG  228 (352)
Q Consensus       149 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~  228 (352)
                      ++...++..+.++|+.++++|+..++...+|.++....-||....|+.  +.||.++|..++|......+++|+++++.|
T Consensus       180 ~I~~~L~~I~~~E~i~~e~~AL~~IA~~a~GslRDalslLdQ~i~~~~--~~i~~~~v~~~lG~~d~~~~~~l~~~i~~~  257 (523)
T PRK08451        180 SIISHLKTILNKEGVSYEPEALEILARSGSGSLRDTLTLLDQAIIFCK--NAITESKVADMLGLLDPSKIEDFFQAILNK  257 (523)
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC--CCCCHHHHHHHHCCCCHHHHHHHHHHHHHC
T ss_conf             999999999998399879999999999778948689879999998479--987799999985888999999999999945


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Q ss_conf             023699999998531100014589999999999
Q gi|254780804|r  229 KIYNAIMLADFFLASKMPSHALLHGFLQKFQLL  261 (352)
Q Consensus       229 ~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L  261 (352)
                      |..+++..+..+  +|.+|..++.-+..+++..
T Consensus       258 d~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~  288 (523)
T PRK08451        258 DKEKLFELLAEL--EDYEAEMVLDEMLLFLKEK  288 (523)
T ss_pred             CHHHHHHHHHHH--HCCCHHHHHHHHHHHHHHH
T ss_conf             899999999998--5318999999999999999


No 22 
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=99.77  E-value=7.2e-16  Score=124.14  Aligned_cols=249  Identities=15%  Similarity=0.106  Sum_probs=197.3

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC---CCC---------------CCEEEEEEHHH--HHCCHH
Q ss_conf             8753210010138479995699658999999999973356---667---------------73077620889--641899
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT---YHD---------------PFSLVVLNALE--IQKNIS   68 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~---~~~---------------~~~~~~~~~~e--~~~d~~   68 (352)
                      .++..-.+...+| .|||+|+...-+...+..+.+.+.-.   ..+               ...+..+++..  -.+++.
T Consensus        27 ~L~nAI~~~RiaH-AYLFsGPrGvGKTTlArifAkaLnC~~~~~~dpCg~C~sC~~I~~g~h~DviEIdaasn~gIDeIR  105 (613)
T PRK05896         27 ILVNAILNNKLTH-AYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCESINTNQSVDIVELDAASNNGVDEIR  105 (613)
T ss_pred             HHHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHH
T ss_conf             9999998499762-277558998488999999999966999999998888878999856999986884065557889999


Q ss_pred             HHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             9999871788888823999847741-045789889885105656079998526543113566765431121014664420
Q gi|254780804|r   69 TFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNK  147 (352)
Q Consensus        69 ~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~  147 (352)
                      .+.+.+.-.|..|..|++||..+.. ......+|...++.||+++++|+...+..+=-   -.  -...+.-+.|.+.+.
T Consensus       106 eLie~~~~~P~~gkyKV~IIDEah~Ln~~AaNALLKtLEEPP~~viFIL~Ttep~KLL---pT--IlSRCQrf~Fkri~~  180 (613)
T PRK05896        106 NIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIP---LT--IISRCQRYNFKKLNN  180 (613)
T ss_pred             HHHHHHCCCCCCCCCEEEEECCHHHCCHHHHHHHHHHCCCCCCCCEEEEEECCHHHCC---HH--HHHCCCCEECCCCCH
T ss_conf             9999708587579945999816221799999999985348987837999828815493---76--640355001788998


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             01358898875430256675679999962001235568999999751034443488888775310122111467888764
Q gi|254780804|r  148 IHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQ  227 (352)
Q Consensus       148 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~  227 (352)
                      .++...++..+.++++.++.+|+..++....|.++...+-||.++.|+.  +.||.++|..+.+-......+++++++..
T Consensus       181 ~~I~~~L~~I~~kE~i~ie~~AL~~Ia~~adGs~RDAlslLdQ~~~~~~--~~it~~~v~~~~g~~~~~~~~~~~~~i~~  258 (613)
T PRK05896        181 SELQELLKSIAKKEKIKIEDNAIDKIADLADGSLRDGLSILDQLSTFKN--KKIDIEDINKTFGLVDNNKKINLIELIQK  258 (613)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC--CCCCHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             9999999999997399878999999999768848789889999998356--88629999999677768999999999985


Q ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             10236999999985311000145899999999999999
Q gi|254780804|r  228 GKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIH  265 (352)
Q Consensus       228 ~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~  265 (352)
                      +|..+.+..++.+..+|.+...++..|..-.+.++...
T Consensus       259 ~d~~~~~~~~~~~~~~g~~~~~~~~~li~~l~d~~~y~  296 (613)
T PRK05896        259 NDIEELRNLINELESKGINFEAFCRDLINLLIDLLVYQ  296 (613)
T ss_pred             CCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf             58999999999999806789999999999999998733


No 23 
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=99.73  E-value=3.1e-14  Score=113.35  Aligned_cols=285  Identities=14%  Similarity=0.092  Sum_probs=205.6

Q ss_pred             HHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHH--CCH-HHHHHHHHCCCCCCC-CEE
Q ss_conf             7532100101384799956996589999999999733566677307762088964--189-999998717888888-239
Q gi|254780804|r   10 IQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQ--KNI-STFWNEINSTSLFSK-KKI   85 (352)
Q Consensus        10 ~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~--~d~-~~l~~~~~t~slF~~-~kl   85 (352)
                      +++.-++..++|  +||||+.---+...+..+.+.+..+... .++..+++.+..  +.. +.+.+.+.+.|+.+. .|+
T Consensus        28 L~~~i~~~~~ph--lLf~GppG~GKTt~a~~la~~l~~~~~~-~~~lelnasd~r~id~vr~~i~~~~~~~~~~~~~~ki  104 (318)
T PRK00440         28 LKSFVKEKNMPH--LLFAGPPGTGKTTAALALARELYGEYWR-ENFLELNASDERGIDVIRNKIKEFARTAPVGGAPFKI  104 (318)
T ss_pred             HHHHHHCCCCCE--EEEECCCCCCHHHHHHHHHHHHCCCCCC-CCEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             999998799866--9888959988999999999997698643-4768951645667178999999999726778997389


Q ss_pred             EEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             99847741-04578988988510565607999852654311356676543112101466442001358898875430256
Q gi|254780804|r   86 ILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKS  164 (352)
Q Consensus        86 Iii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~  164 (352)
                      |+++++.. .+.....|...++.++.++.+|+.+....+   +-..+  ...+..+.|.++...++...++..+.++|++
T Consensus       105 iiiDE~d~l~~~aq~aL~~~mE~~~~~~~fil~~n~~~k---ii~~i--~SRc~~i~f~~~~~~~i~~~L~~I~~~E~i~  179 (318)
T PRK00440        105 IFLDEADNLTSDAQQALRRTMEMYSQTTRFILSCNYSSK---IIDPI--QSRCAVFRFSPLPKEAVIERLRYIAKNEGLE  179 (318)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCC---CCCCH--HHHHEEEECCCCCHHHHHHHHHHHHHHCCCC
T ss_conf             998685532255678887643105666258863488333---76155--6551011157899999999999999985999


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-HH
Q ss_conf             67567999996200123556899999975103444348888877531012211146788876410236999999985-31
Q gi|254780804|r  165 ISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFL-AS  243 (352)
Q Consensus       165 i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~-~~  243 (352)
                      ++++++..++..++||++...|-|+-++..   ...||.++|..+++......+.++++++..|+..++...+.+++ ..
T Consensus       180 ~~~~~l~~i~~~s~gdlR~ain~Lq~~~~~---~~~it~~~v~~~~~~~~~~~i~~ii~~~~~~~~~~~~~~l~~ll~~~  256 (318)
T PRK00440        180 ITDDALEAIYYVSEGDMRKAINALQAAAAT---GKEVTEEAVYKITGTARPEEIREMINLALNGDFTEAREKLRELMIDY  256 (318)
T ss_pred             CCHHHHHHHHHHCCCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
T ss_conf             899999999986499899999999999974---89878999999976999899999999997089999999999999865


Q ss_pred             HCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             10001458999999999999999830256898999986089999768999999986499899999999999999995328
Q gi|254780804|r  244 KMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKK  323 (352)
Q Consensus       244 g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~  323 (352)
                      |.+|.-|+..+.+.+..          .                            .++.....+++..+.++|..+.. 
T Consensus       257 g~~~~dIi~~l~~~l~~----------~----------------------------~~~~~~k~~ii~~ia~~e~rl~~-  297 (318)
T PRK00440        257 GLSGEDIIKQIHREVLR----------L----------------------------DIPEDLKVELIDAIGEADFRITE-  297 (318)
T ss_pred             CCCHHHHHHHHHHHHHH----------C----------------------------CCCHHHHHHHHHHHHHHHHHHHC-
T ss_conf             99999999999999984----------5----------------------------99989999999999999999870-


Q ss_pred             CCCHHHHHHHHHHHHHHHHHC
Q ss_conf             999899999999999996310
Q gi|254780804|r  324 KYLEKNIIFQTILYIAQTACK  344 (352)
Q Consensus       324 ~~~~~~il~~~ll~l~~~a~~  344 (352)
                      +..+..-++.++.+++...+|
T Consensus       298 g~~~~lqLe~lla~l~~l~k~  318 (318)
T PRK00440        298 GANERIQLEALLAKLALLGKK  318 (318)
T ss_pred             CCCHHHHHHHHHHHHHHHHCC
T ss_conf             799999999999999986187


No 24 
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.73  E-value=1e-13  Score=109.87  Aligned_cols=308  Identities=10%  Similarity=0.081  Sum_probs=228.9

Q ss_pred             HHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC-----------------------CCCCCEEEEEEHHH--HH
Q ss_conf             753210010138479995699658999999999973356-----------------------66773077620889--64
Q gi|254780804|r   10 IQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT-----------------------YHDPFSLVVLNALE--IQ   64 (352)
Q Consensus        10 ~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~-----------------------~~~~~~~~~~~~~e--~~   64 (352)
                      |++--....++| -|||.|..---+....+.+.|.+.-.                       .+....+..+|+.-  -.
T Consensus        28 l~na~~~~r~~h-aylf~G~rGvGKTt~ari~Ak~lnc~~~~~~~g~~~~pcg~C~~C~~i~~g~~~d~~EiDaas~~~v  106 (721)
T PRK12323         28 LTHALEQQRLHH-AYLFTGTRGVGKTTLSRILAKSLNCTGPDGEGGITAQPCGQCRACTEIDAGRFVDYIEMDAASNRGV  106 (721)
T ss_pred             HHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCH
T ss_conf             999997199754-4750279988898999999999768998667898788787765468775689876477436767888


Q ss_pred             CCHHHHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf             18999999871788888823999847741-04578988988510565607999852654311356676543112101466
Q gi|254780804|r   65 KNISTFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCY  143 (352)
Q Consensus        65 ~d~~~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~  143 (352)
                      +|...|++.+.-.|.-|-.|+.||+.+.- ++.....|.+-++.||+++.+|+-..+..|-   -..+  ...+.-+.+.
T Consensus       107 ~~~r~l~~~~~y~P~~~~~KvyiiDevhmls~~afnalLKtlEePP~hv~FilaTT~~~Ki---p~Ti--lSRc~~f~~~  181 (721)
T PRK12323        107 DEMAQLLDQAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKI---PVTV--LSRCLQFNLK  181 (721)
T ss_pred             HHHHHHHHHCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CHHH--HHHHHHCCCC
T ss_conf             9999999854558876644699985400058999999998401797553899943863448---5889--8776542347


Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             44200135889887543025667567999996200123556899999975103444348888877531012211146788
Q gi|254780804|r  144 PDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIIN  223 (352)
Q Consensus       144 ~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~d  223 (352)
                      ..+..++...+...+.++|+.++++|+++|+...+|.++...+-+|.-+.|.+  +.|+.++|..+++..-...+++|++
T Consensus       182 ~~~~~~i~~~l~~i~~~E~i~~~~~al~~ia~~a~Gs~RDalslldQaia~~~--g~~~~~~v~~mlg~~d~~~~~~ll~  259 (721)
T PRK12323        182 QMPPGHIVSHLDAILGQEGIGHEGNALRLLAQAAHGSMRDALSLTDQAIAYSA--GNVSEEAVRGMLGAIDQRYLVRLLD  259 (721)
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCC--CCCCHHHHHHHHCCCCHHHHHHHHH
T ss_conf             89999999999999998399779999999999758964768889999998658--9626999999868887789999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCH
Q ss_conf             87641023699999998531100014589999999999999998302568989999860899997689999999864998
Q gi|254780804|r  224 ATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNK  303 (352)
Q Consensus       224 ai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~  303 (352)
                      +++.||...++..++.+...|.+...++.-|...+.++...+..-..    ...         -+.....+...++.++.
T Consensus       260 al~~~d~~~~~~~~~~~~~~~~d~~~~l~~l~~~lh~ia~~q~~p~~----~~~---------~~~~~~~~~~la~~~~~  326 (721)
T PRK12323        260 ALAAEDGAAVLAIADEMADRSLSFAGALQDLASLLSKVALAQRVPAA----VQD---------DWPEADDIRRLAGVFDA  326 (721)
T ss_pred             HHHHCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCC----CCC---------CCHHHHHHHHHHHCCCH
T ss_conf             99955899999999999986889999999999999999999856200----135---------55008999999962999


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999999999999999953289998999999999999
Q gi|254780804|r  304 NLVRETLHKIDHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       304 ~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      +.++-.+.+....-..+-- ..+...-++-.+|++.
T Consensus       327 e~~Ql~yqi~l~gr~dl~~-ap~~~~g~eM~lLRml  361 (721)
T PRK12323        327 QAVQLFYQVANLGRSELAL-APDEYAGFTMTLLRML  361 (721)
T ss_pred             HHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHH
T ss_conf             9999999999831766511-9880250999999998


No 25 
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=99.73  E-value=8.3e-14  Score=110.49  Aligned_cols=303  Identities=11%  Similarity=0.113  Sum_probs=218.6

Q ss_pred             HHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC--C-------------CCCCEEEEEEHHH--HHCCHHHHHHHHHCCC
Q ss_conf             010138479995699658999999999973356--6-------------6773077620889--6418999999871788
Q gi|254780804|r   16 NLFLSHFVFIFYGSDKGLIFELINQFKKNISIT--Y-------------HDPFSLVVLNALE--IQKNISTFWNEINSTS   78 (352)
Q Consensus        16 ~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~--~-------------~~~~~~~~~~~~e--~~~d~~~l~~~~~t~s   78 (352)
                      ....+| .|||+|+..--+-..++.+.+.+.-.  .             +....+..+|+..  -.++...+.+.+...|
T Consensus        36 ~gRIaH-AYLF~GPRGvGKTT~ARIfAKaLNC~~~~d~~~pC~~C~~~~~~s~DViEIDAASn~gVDdIReLie~v~y~P  114 (718)
T PRK07133         36 SGKISH-AYLFSGPHGTGKTSVAKIFANALNCSHKTDLIEPCQNCIENFNNNLDIIEMDAASNNGVDEIRELRENVKNLP  114 (718)
T ss_pred             CCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHCCCCCCCEEEECCCCCCCHHHHHHHHHHHCCCC
T ss_conf             499750-5862389986889999999999679999999997702143047898737754556688899999999825588


Q ss_pred             CCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf             888823999847741-0457898898851056560799985265431135667654311210146644200135889887
Q gi|254780804|r   79 LFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEES  157 (352)
Q Consensus        79 lF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~  157 (352)
                      .-|..|+.||..+.- ......+|...++.||+++++|+...+..+--   ..  -...+.-..|.+.+..++...++..
T Consensus       115 ~~gkYKVyIIDEvHMLS~~AfNALLKtLEEPP~hvvFILaTTep~KIP---~T--IlSRCQrFdFkrI~~~~I~~~L~~I  189 (718)
T PRK07133        115 QISKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTDVQKIP---LT--ILSRVQRFNFRRISEDVIVHQLENI  189 (718)
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEEEECCHHHCC---HH--HHHCCEEEECCCCCHHHHHHHHHHH
T ss_conf             778724999966200799999999985027987827999708825484---87--7412203358889999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             54302566756799999620012355689999997510344434888887753101221114678887641023699999
Q gi|254780804|r  158 LLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLA  237 (352)
Q Consensus       158 ~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l  237 (352)
                      +.++|+.++++|+..++...+|.++...+-+|.++.|+  .+.||.++|..+.|-....+.-++++.+..+|...++..+
T Consensus       190 ~~kE~I~~e~eAL~lIA~~a~GSmRDAlSlLDQv~~f~--ng~it~k~v~~~~Gl~~~~~~i~~~n~~~~~~~~~~l~~l  267 (718)
T PRK07133        190 LEKEKIKYEKNALKLIASLASGSLRDALSIADQVSIFG--NGNITLKNVNELFGLVSNEIVINFLNLLYSKNIKEVLEKL  267 (718)
T ss_pred             HHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCHHHHHHHH
T ss_conf             99859977899999999976884888987999999854--8987299999996765579999999999861699999999


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             99853110001458999999999999999830256898999986089999768999999986499899999999999999
Q gi|254780804|r  238 DFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRI  317 (352)
Q Consensus       238 ~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d  317 (352)
                      +.+..+|.+|-+++..|..-++..+....   .+   ....+..+.    ......    + ..+...--+.+..|.++-
T Consensus       268 ~~~~~~gid~~~l~~~li~~~kd~ii~~~---t~---~~~ll~~~~----~~~l~~----l-kId~~fay~~~e~l~~~l  332 (718)
T PRK07133        268 NQLKFQGIDPELLVISLINLVKDFIVFKK---TK---DNSLLEYYS----EFDLEN----L-KISIDFAYKFIEELMSLL  332 (718)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHHHEEEC---CC---CHHHHHHCC----HHHHHH----H-EECHHHHHHHHHHHHHHH
T ss_conf             99997588999999999999988832402---57---407987525----887854----1-200999999999999999


Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             9953289998999999999999963
Q gi|254780804|r  318 HLARKKKYLEKNIIFQTILYIAQTA  342 (352)
Q Consensus       318 ~~~K~~~~~~~~il~~~ll~l~~~a  342 (352)
                      ..++-+..+ -..++-++++++...
T Consensus       333 ~~l~~se~p-~~~~Ei~iikl~~~~  356 (718)
T PRK07133        333 KDLKFSEFP-FLTLEIFILKLLSLS  356 (718)
T ss_pred             HHHHHCCCC-HHHHHHHHHHHHHHC
T ss_conf             987740380-788999999998751


No 26 
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=99.72  E-value=4e-14  Score=112.57  Aligned_cols=280  Identities=15%  Similarity=0.125  Sum_probs=194.6

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCC----CCEEEEE------------------EHH-HH--
Q ss_conf             8753210010138479995699658999999999973356667----7307762------------------088-96--
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHD----PFSLVVL------------------NAL-EI--   63 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~----~~~~~~~------------------~~~-e~--   63 (352)
                      .+++.-++-..+|  |||||+.---+...+..+.+.+..+..+    +++...+                  +.. ..  
T Consensus        26 ~L~~~~~~~~~ph--lLf~GPpG~GKTt~A~~lA~~l~~~~~~~~~~~~nasd~~~~~~~~i~~~~~~~~~~~~~~~~~~  103 (337)
T PRK12402         26 HLSALAASGNLPH--LVVYGPSGSGKTAAVRALARELYGDPWENNFTYFNVSDFFDQGKKYLVEDPRFAHFYDDPKRKYK  103 (337)
T ss_pred             HHHHHHHCCCCCE--EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCEECCCCCCCCCCCEEECCCCHHHHHCCHHHCCC
T ss_conf             9999997799876--98889298489999999999967997567833311653113564001016642344201533277


Q ss_pred             --HCCHHHHH-HHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHH
Q ss_conf             --41899999-9871788888823999847741-0457898898851056560799985265431135667654311210
Q gi|254780804|r   64 --QKNISTFW-NEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLA  139 (352)
Q Consensus        64 --~~d~~~l~-~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~  139 (352)
                        ......+. +.+...|+-++.|+|+++++.. ......+|...++.|+.++.+|+......+   +-..+  ...+..
T Consensus       104 ~~~d~i~~ii~~~a~~~p~~~~~KiiIlDEad~lt~~Aq~aLlk~lEe~~~~~~fIl~t~~~~~---ii~tI--~SRC~~  178 (337)
T PRK12402        104 SVIDNFKHILKEYASMRPLSADYKLILFDNAEALREDAQQALRRIMERYSETCRFIFSTTQPSK---LIPPI--RSRCLP  178 (337)
T ss_pred             CHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCC---CCHHH--HHHCEE
T ss_conf             3789999999998614887788049997071317999999999887408876699872386444---75247--762445


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHH
Q ss_conf             14664420013588988754302566756799999620012355689999997510344434888887753101221114
Q gi|254780804|r  140 ISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIE  219 (352)
Q Consensus       140 v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if  219 (352)
                      +.|.+++..++...++..++++|+++++++++.|+..++||++...|-|+-++..  ....++.+.+..+.+......+-
T Consensus       179 i~F~~~s~~~i~~~L~~I~~~E~i~~~~~~l~~ia~~s~GdlR~ain~Lq~~~~~--~~~~~~~~~~~~~~~~~~~~~i~  256 (337)
T PRK12402        179 LFFRPVPDDEIRSVLESIAAAEGVEISDDGLDLIAYYAEGDLRKAILTLQLAAEA--EGEVTTEAALEELSDTGTDETVE  256 (337)
T ss_pred             EECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHH--CCCCCCHHHHHHHHCCCCHHHHH
T ss_conf             4358989999999999999984999899999999998699899999999999872--79977188999987789799999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH-HHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             6788876410236999999985-311000145899999999999999983025689899998608999976899999998
Q gi|254780804|r  220 EIINATIQGKIYNAIMLADFFL-ASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESL  298 (352)
Q Consensus       220 ~L~dai~~~~~~~a~~~l~~l~-~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~  298 (352)
                      ++++++..++...+...+++++ ..|.++..|+..|...+.                                       
T Consensus       257 ~~~~~~~~~~~~~~~~~~~~l~~~~g~~~~~il~~l~~~~~---------------------------------------  297 (337)
T PRK12402        257 EALDAAEAGDFTDARSLLDDLLIDEGLSGREVLRELLEVAR---------------------------------------  297 (337)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH---------------------------------------
T ss_conf             99999984899999999999887559999999999999998---------------------------------------


Q ss_pred             HCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             649989999999999999999532899989999999999
Q gi|254780804|r  299 RIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILY  337 (352)
Q Consensus       299 ~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~  337 (352)
                      ..++...+.+++..+.++|.++.. +..+..-++-++.+
T Consensus       298 ~~~~~~~~~~i~~~~a~~e~rl~~-g~~~~lqL~a~la~  335 (337)
T PRK12402        298 RGYSEYNVAELATLAADADARLTD-AANERIQLNALLAE  335 (337)
T ss_pred             HHCCHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_conf             747868999999999999988751-79999999999984


No 27 
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=99.70  E-value=2.4e-13  Score=107.40  Aligned_cols=308  Identities=14%  Similarity=0.103  Sum_probs=223.7

Q ss_pred             HHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC---CCC---------------CEEEEEEHHH--HHCCHHH
Q ss_conf             7532100101384799956996589999999999733566---677---------------3077620889--6418999
Q gi|254780804|r   10 IQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY---HDP---------------FSLVVLNALE--IQKNIST   69 (352)
Q Consensus        10 ~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~---~~~---------------~~~~~~~~~e--~~~d~~~   69 (352)
                      |++--++..++| -|||+|..---+....+.+.|.+.-..   .++               ..+..+|+.-  -.+|...
T Consensus        28 L~nal~~~rl~h-aylf~G~rGvGKTt~Ari~Ak~lNC~~~~~~~pCg~C~~C~~i~~g~~~D~~EiDaAs~~~vdd~R~  106 (704)
T PRK08691         28 LQNALDEGRLHH-AYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVDLLEIDAASNTGIDNIRE  106 (704)
T ss_pred             HHHHHHHCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHH
T ss_conf             999998199752-3750278987888999999999679999999978777767878558998747742454458899999


Q ss_pred             HHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             999871788888823999847741-0457898898851056560799985265431135667654311210146644200
Q gi|254780804|r   70 FWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKI  148 (352)
Q Consensus        70 l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~  148 (352)
                      |++.+.-.|.-|..|+.+|+.+.- ++.....|.+.++.||+++.+|+...+..|-   -..+  ...+.-+.+.+.+..
T Consensus       107 l~~~~~y~P~~~~yKVyiiDEvhmLs~~afNAlLKtLEEPP~~v~FilaTTdp~Kl---p~TI--lSRC~~f~l~~~~~~  181 (704)
T PRK08691        107 VLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKV---PVTV--LSRCLQFVLRNMTAQ  181 (704)
T ss_pred             HHHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CHHH--HHHHHHHCCCCCCHH
T ss_conf             99853468867853599983154438999999998614797560899854884647---5899--988877102689999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             13588988754302566756799999620012355689999997510344434888887753101221114678887641
Q gi|254780804|r  149 HLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQG  228 (352)
Q Consensus       149 ~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~  228 (352)
                      .+...+...+.++|+.++++|+.+|+...+|.++...+-+|.-+.|.  .+.|+.++|..++|..-...+++|++++..|
T Consensus       182 ~i~~~L~~i~~~E~i~~e~~al~~ia~~a~Gs~RDalslldQaia~~--~g~~~~~~v~~mLG~~d~~~~~~ll~al~~~  259 (704)
T PRK08691        182 QVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIALG--SGKVAENDVRQMIGAVDKQYLYELLTGIINQ  259 (704)
T ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHC
T ss_conf             99999999999839856899999999975785777988999999964--8962699999985888778999999999955


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             02369999999853110001458999999999999999830256898999986089999768999999986499899999
Q gi|254780804|r  229 KIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRE  308 (352)
Q Consensus       229 ~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~  308 (352)
                      |...++..++.+...|.+--.+|.-|...+.++...+..-..-  +.           -......+..-++.++.+.++-
T Consensus       260 d~~~~~~~~~~~~~~~~~~~~~l~~l~~~lh~ia~~q~~p~~~--~~-----------~~~~~~~~~~la~~~~~e~~Ql  326 (704)
T PRK08691        260 DGAALTAKAQEMAACAVGFDNALGELAILLQQLALIQAVPNAL--AH-----------DDPDSDILHRLAQTISGEQIQL  326 (704)
T ss_pred             CHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCHHHC--CC-----------CCCCHHHHHHHHHCCCHHHHHH
T ss_conf             8999999999999868999999999999999999998581310--45-----------6710899999997089999999


Q ss_pred             HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             9999999999953289998999999999999
Q gi|254780804|r  309 TLHKIDHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       309 ~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      .+.+....-..+-- ..+...-++-++|++.
T Consensus       327 ~Yqi~l~gr~dl~~-ap~~~~g~eM~lLRml  356 (704)
T PRK08691        327 YYQIAVHGKRDLSL-APDEYAGFMMTLLRML  356 (704)
T ss_pred             HHHHHHHCCCCCCC-CCCCHHHHHHHHHHHH
T ss_conf             99999822022556-9970253999999998


No 28 
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=99.67  E-value=8.1e-13  Score=103.95  Aligned_cols=303  Identities=11%  Similarity=0.076  Sum_probs=222.8

Q ss_pred             HHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC------------------CCCCCEEEEEEHHH--HHCCHHHHHHHH
Q ss_conf             0010138479995699658999999999973356------------------66773077620889--641899999987
Q gi|254780804|r   15 KNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT------------------YHDPFSLVVLNALE--IQKNISTFWNEI   74 (352)
Q Consensus        15 ~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~------------------~~~~~~~~~~~~~e--~~~d~~~l~~~~   74 (352)
                      .+-.++| .|||+|.----+-...+.+.|.+.-.                  .+.-..++.+|+.-  -.+|...|++.+
T Consensus        33 ~~~rl~h-aylf~G~rGvGKTt~aRi~Ak~lnC~~~~~~~pcg~C~~C~~i~~g~~~d~iEiDaAS~~~vd~~r~l~~~~  111 (816)
T PRK07003         33 DGGRLHH-AYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDYVEMDAASNRGVDEMAALLERA  111 (816)
T ss_pred             HCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHC
T ss_conf             7098631-475117898888899999999867899999897877555787755887754786355435768999999862


Q ss_pred             HCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             1788888823999847741-045789889885105656079998526543113566765431121014664420013588
Q gi|254780804|r   75 NSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDL  153 (352)
Q Consensus        75 ~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~  153 (352)
                      .-.|.-|-.|+++|+...- ++.....|.+.++.||+++.+|+-..+..|-   -..+  ...+.-+.+...+..++...
T Consensus       112 ~y~p~~~r~KvyiiDEvHmls~~afnalLKtlEepP~hv~FilaTTd~~k~---p~ti--lSRc~~f~l~~~~~~~i~~~  186 (816)
T PRK07003        112 VYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKI---PVTV--LSRCLQFNLKQMPAGHIVSH  186 (816)
T ss_pred             CCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CHHH--HHHHHHCCCCCCCHHHHHHH
T ss_conf             247866744799984154339999999998403798664899955880115---2889--87776522367999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             98875430256675679999962001235568999999751034443488888775310122111467888764102369
Q gi|254780804|r  154 IEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNA  233 (352)
Q Consensus       154 i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a  233 (352)
                      +...+.++|+.++++|+.+|+...+|.++...+-++.-+.|.  ++.|+.++|..+++..-...++.|++++..||....
T Consensus       187 l~~i~~~E~i~~e~~al~lia~~a~GsmRDalsl~dQaia~~--~g~~~~~~v~~mLG~~d~~~~~~ll~al~~~d~~~~  264 (816)
T PRK07003        187 LERILGEERIAFEPQALRLLARAAQGSMRDALSLTDQAIAYS--ANEVTETAVSGMLGALDQTYMVRLLDALAAADGPEI  264 (816)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCHHHH
T ss_conf             999999829977999999999976773788885999999846--997379999998588877899999999995589999


Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             99999985311000145899999999999999983025689899998608999976899999998649989999999999
Q gi|254780804|r  234 IMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKI  313 (352)
Q Consensus       234 ~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L  313 (352)
                      +..++++-..|.+...+|..|...+.++...+..-.       ....      -+.....+.+-++.++.+.++-.+.+.
T Consensus       265 ~~~~~~~~~~~~~~~~~l~~l~~~lh~ia~~q~~p~-------~~~~------~~~~~~~~~~la~~~~~e~~Ql~Yqi~  331 (816)
T PRK07003        265 LAIADEMSLRSLSFSTALQDLASLLHRIAWAQFAPG-------SVLD------EWPEAADLRRFAELLSPEQVQLFYQIA  331 (816)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCH-------HCCC------CCCCHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             999999998688999999999999999999984610-------0023------462189999999728999999999999


Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             99999953289998999999999999
Q gi|254780804|r  314 DHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       314 ~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      ...-..+-- ..+...-++-++|++.
T Consensus       332 l~gr~dl~~-ap~~~~g~em~llRml  356 (816)
T PRK07003        332 TVGRAELGL-APDEYAGFTMTLLRML  356 (816)
T ss_pred             HHCHHHCCC-CCCCHHHHHHHHHHHH
T ss_conf             703443134-9881130999999998


No 29 
>PRK05648 DNA polymerase III subunits gamma and tau; Reviewed
Probab=99.67  E-value=1.2e-12  Score=102.84  Aligned_cols=303  Identities=10%  Similarity=0.074  Sum_probs=225.0

Q ss_pred             HHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC---CC---------------CEEEEEEHHH--HHCCHHHHHHHH
Q ss_conf             001013847999569965899999999997335666---77---------------3077620889--641899999987
Q gi|254780804|r   15 KNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH---DP---------------FSLVVLNALE--IQKNISTFWNEI   74 (352)
Q Consensus        15 ~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~---~~---------------~~~~~~~~~e--~~~d~~~l~~~~   74 (352)
                      ....++| -|||+|.----+-...+.+.|.+.-..+   .+               ..++.+|+.-  -.+|...+++.+
T Consensus        33 ~~~~~~~-a~l~~g~rg~gkt~~ar~~ak~lnc~~~~~~~pc~~c~~c~~i~~~~~~d~~e~d~as~~~v~~~r~~~~~~  111 (705)
T PRK05648         33 DNQRLHH-AYLFTGTRGVGKTTIARIIAKCLNCETGVSSTPCGECSVCREIDEGRFVDLIEVDAASRTKVEDTRELLDNV  111 (705)
T ss_pred             HCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHHHHHHHHC
T ss_conf             7098630-465007898889899999999867789998897877600466624897763445155447889999999855


Q ss_pred             HCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             1788888823999847741-045789889885105656079998526543113566765431121014664420013588
Q gi|254780804|r   75 NSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDL  153 (352)
Q Consensus        75 ~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~  153 (352)
                      .-.|--|-.|+.+|+...- ++.....|.+-++.||+++.+|+-..+..|   +-..+  ...+.-+.+......++...
T Consensus       112 ~~~p~~~~~kv~~idevhmls~~~fnallktleepp~~v~f~~att~~~k---~p~t~--~src~~~~~~~~~~~~~~~~  186 (705)
T PRK05648        112 QYAPTRGRYKVYLIDEVHMLSSHSFNALLKTLEEPPPHVKFLLATTDPQK---LPVTI--LSRCLQFSLKNMSPERVVEH  186 (705)
T ss_pred             CCCCCCCCEEEEEEEHHHHCCHHHHHHHHHHCCCCCCCEEEEEECCCHHH---CCHHH--HHHHHHCCCCCCCHHHHHHH
T ss_conf             51776774579998426541799999998740479754599984287353---75899--97664302368999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             98875430256675679999962001235568999999751034443488888775310122111467888764102369
Q gi|254780804|r  154 IEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNA  233 (352)
Q Consensus       154 i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a  233 (352)
                      +...+.++|+.++++|+..|+....|.++....-++.-+.|.  .+.|+.++|..++|......+++|+++++.||....
T Consensus       187 l~~~~~~e~~~~~~~~~~~~~~~~~g~~rd~ls~~dq~~~~~--~~~~~~~~v~~mlg~~~~~~~~~l~~a~~~~d~~~~  264 (705)
T PRK05648        187 LSHVLGAENVPFEEDALWLLGRAADGSMRDAMSLTDQAIAFG--EGKVLAADVRAMLGTLDHGQVYGVLQALLEGDARAL  264 (705)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHCC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCHHHH
T ss_conf             999999759977899999999974896777999999998606--884079999998588877899999999995689999


Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             99999985311000145899999999999999983025689899998608999976899999998649989999999999
Q gi|254780804|r  234 IMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKI  313 (352)
Q Consensus       234 ~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L  313 (352)
                      +..++.+...|.+...++..|...+.++...+..-..    .+.         -+..+..+...++.++.+.++-.+.++
T Consensus       265 ~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~q~~p~~----~~~---------~~~~~~~~~~lA~~~s~E~vQL~YQi~  331 (705)
T PRK05648        265 LEAVRHLAEQGPDWNGVLAEMLNVLHRVAIAQALPEA----VDN---------GQGDRERVLALAQALPAEDVQFYYQMG  331 (705)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCHH----HCC---------CCCHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             9999999985889999999999999999999845021----024---------530499999999857999999999999


Q ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             99999953289998999999999999
Q gi|254780804|r  314 DHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       314 ~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      ...-..+.- ..+...-++-.+|++.
T Consensus       332 l~gr~dL~l-APd~r~g~EM~LLRmL  356 (705)
T PRK05648        332 LIGRRDLPL-APDPRGGFEMVLLRML  356 (705)
T ss_pred             HHHHHHCCC-CCCCHHHHHHHHHHHH
T ss_conf             840200466-9970364999999998


No 30 
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=99.66  E-value=2.4e-12  Score=100.86  Aligned_cols=308  Identities=11%  Similarity=0.062  Sum_probs=224.3

Q ss_pred             HHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC------------------CCCEEEEEEHHH--HHCCHHHH
Q ss_conf             5321001013847999569965899999999997335666------------------773077620889--64189999
Q gi|254780804|r   11 QKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH------------------DPFSLVVLNALE--IQKNISTF   70 (352)
Q Consensus        11 ~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~------------------~~~~~~~~~~~e--~~~d~~~l   70 (352)
                      ++--.+...+| -|||.|.----+....+.+.|.+.-..+                  .-..+..+|+.-  -.+|..++
T Consensus        29 ~na~~~~r~~h-aylf~G~rG~GKtt~ari~ak~lnc~~~~~~~pcg~c~~c~~i~~g~~~d~~eidaas~~~vd~~rel  107 (643)
T PRK07994         29 ANGLSLGRIHH-AYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDL  107 (643)
T ss_pred             HHHHHHCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHH
T ss_conf             99998298663-48745899888889999999996799999999787677689886589887588636777888999999


Q ss_pred             HHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             99871788888823999847741-04578988988510565607999852654311356676543112101466442001
Q gi|254780804|r   71 WNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIH  149 (352)
Q Consensus        71 ~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~  149 (352)
                      ++.+.-.|.-|..|+++|+...- ++....+|.+.++.||+++.+|+...+..|   +-..+  ...+.-+.+.+....+
T Consensus       108 ~~~~~y~p~~~r~kvyiidEvhmls~~afnalLKtlEePp~hv~filaTT~~~k---~p~Ti--lSRC~~f~~~~~~~~~  182 (643)
T PRK07994        108 LDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPAHVKFLLATTDPQK---LPVTI--LSRCLQFHLKALDVEQ  182 (643)
T ss_pred             HHHCCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCHHCEEEEECCCHHH---CCHHH--HHHHHHEECCCCCHHH
T ss_conf             984466887785369997221015899999999862378610089986077454---84789--9777650016699999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             35889887543025667567999996200123556899999975103444348888877531012211146788876410
Q gi|254780804|r  150 LMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGK  229 (352)
Q Consensus       150 l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~  229 (352)
                      +...+...+.++|+.++++|+..|+....|.++....-+|.-+.|.  .+.|+.++|..++|..-...+|+|+++++.||
T Consensus       183 i~~~l~~i~~~e~i~~~~~al~~ia~~a~gs~rdalsl~dq~i~~~--~~~~~~~~v~~mlg~~d~~~~~~ll~al~~~d  260 (643)
T PRK07994        183 IRHQLEHILNEEHIAHEPRALQLLARAADGSLRDALSLTDQAIASG--DGQVSTQAVSAMLGTLDDDQALSLVEALVEAN  260 (643)
T ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCC
T ss_conf             9999999999759987889999999974786566888999999865--89747999999858998789999999999569


Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             23699999998531100014589999999999999998302568989999860899997689999999864998999999
Q gi|254780804|r  230 IYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRET  309 (352)
Q Consensus       230 ~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~  309 (352)
                      ....+..++++-..|.+...+|.-|...+.++...+..-...+.+.            .-....+..-++..+.+.++-.
T Consensus       261 ~~~~~~~~~~~~~~~~~~~~~l~~l~~~lh~ia~~Q~~p~~~~~~~------------~~~~~~~~~La~~~~~e~vQL~  328 (643)
T PRK07994        261 GERVMALINEAAARGIEWEALLVEMLSLLHRIAMVQLSPAALGNDM------------AAIELRMRELARTIPPTDIQLY  328 (643)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCHHHCCCC------------HHHHHHHHHHHHHCCHHHHHHH
T ss_conf             9999999999998688999999999999999999984712102543------------0167999999984799999999


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999999999953289998999999999999
Q gi|254780804|r  310 LHKIDHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       310 l~~L~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      +.++...-..+-- ..+.+.-++-++|++.
T Consensus       329 YQIal~GrkdL~l-APd~r~gfEMtLLRmL  357 (643)
T PRK07994        329 YQTLLIGRKELPY-APDRRMGVEMTLLRAL  357 (643)
T ss_pred             HHHHHHHHHHCCC-CCCHHHHHHHHHHHHH
T ss_conf             9999830200466-9871453999999998


No 31 
>PRK08853 DNA polymerase III subunits gamma and tau; Validated
Probab=99.66  E-value=1.3e-12  Score=102.66  Aligned_cols=301  Identities=10%  Similarity=0.047  Sum_probs=219.9

Q ss_pred             HHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC------------------CCCCEEEEEEHHH--HHCCHHHHHHHHHC
Q ss_conf             101384799956996589999999999733566------------------6773077620889--64189999998717
Q gi|254780804|r   17 LFLSHFVFIFYGSDKGLIFELINQFKKNISITY------------------HDPFSLVVLNALE--IQKNISTFWNEINS   76 (352)
Q Consensus        17 ~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~------------------~~~~~~~~~~~~e--~~~d~~~l~~~~~t   76 (352)
                      ..++| .|||.|.----+....+.+.|.+.-..                  +.-..+..+|+.-  -.+|...+.+.+.-
T Consensus        35 ~rl~h-aylf~G~rGvGKTt~ARi~Ak~lNC~~~~~~~pcg~C~~C~~i~~g~~~d~~EiDaAs~~~vdd~rel~~~~~y  113 (717)
T PRK08853         35 NRLHH-AYLFSGTRGVGKTTIGRLFAKGLNCETGITSTPCGQCATCKEIDEGRFVDLLEIDAASRTKVEDTRELLDNVQY  113 (717)
T ss_pred             CCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCHHHHHHHHHHCCC
T ss_conf             99740-57610889888989999999986789999999788870267674478775245405656788999999985554


Q ss_pred             CCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             88888823999847741-04578988988510565607999852654311356676543112101466442001358898
Q gi|254780804|r   77 TSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIE  155 (352)
Q Consensus        77 ~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~  155 (352)
                      .|.-|-.|+++|+.+.- ++.....|.+.++.||+++.+|+...+..|-   -..+  ...+.-+.+...+..++...+.
T Consensus       114 ~p~~~~yKvyiiDEvHmls~~afnAlLKtlEEPP~hv~FilaTT~~~ki---p~Ti--lSRc~~f~l~~~~~~~i~~~l~  188 (717)
T PRK08853        114 KPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEYVKFLLATTDPQKL---PVTI--LSRCLQFHLKPISVDQIHQQLD  188 (717)
T ss_pred             CCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CHHH--HHHHHHCCCCCCCHHHHHHHHH
T ss_conf             8877854799983054438999999987603787564899843873437---3889--8765442326899999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             87543025667567999996200123556899999975103444348888877531012211146788876410236999
Q gi|254780804|r  156 ESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIM  235 (352)
Q Consensus       156 ~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~  235 (352)
                      ..+.++|+.++++|+.+|+...+|.++...+-++.-+.|.  .+.|+.++|..++|..-...+++|+++++.||....+.
T Consensus       189 ~i~~~E~i~~~~~al~~ia~~a~Gs~Rdalsl~dqaia~~--~g~~~~~~v~~mlg~~d~~~~~~ll~al~~~d~~~~~~  266 (717)
T PRK08853        189 FVLDKEQVSAEARALGLIAHAADGSMRDALSLTDQAIALG--NGQVTTDIVSHMLGTLDTDQAIHLLEAISSKQPQTAMD  266 (717)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCHHHHHH
T ss_conf             9999759876999999999976883778888999999965--89716999999858887789999999999558999999


Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99998531100014589999999999999998302568989999860899997689999999864998999999999999
Q gi|254780804|r  236 LADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDH  315 (352)
Q Consensus       236 ~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~  315 (352)
                      .+..+...|.+...+|..|..-+.++...+..-.        .+...     ......+..-+++++.+.++-.+..+..
T Consensus       267 ~~~~~~~~~~~~~~~l~~l~~~lh~ia~~q~~p~--------~~~~~-----~~~~~~i~~la~~~~~e~~Ql~YQi~l~  333 (717)
T PRK08853        267 CIQQLADNGVEWDGLLQQLATQLHRIAMYQALPA--------TLDKA-----QPDAERIELLSKALSPQDVQLYYQIALK  333 (717)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCHH--------HHCCC-----CCCHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             9999998688999999999999999999984814--------21244-----6418999999983899999999999970


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999953289998999999999999
Q gi|254780804|r  316 RIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       316 ~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      .-..+-- ..+...-++-.+|++.
T Consensus       334 gr~dl~~-apd~~~g~eM~lLRml  356 (717)
T PRK08853        334 GRQDLPL-APNGRIGMEMIVLRMM  356 (717)
T ss_pred             CCCCCCC-CCCHHHHHHHHHHHHH
T ss_conf             3011566-9963676999999997


No 32 
>PRK06872 DNA polymerase III subunits gamma and tau; Provisional
Probab=99.62  E-value=9e-12  Score=97.01  Aligned_cols=303  Identities=12%  Similarity=0.070  Sum_probs=219.9

Q ss_pred             HHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC------------------CCCEEEEEEHHH--HHCCHHHHH
Q ss_conf             321001013847999569965899999999997335666------------------773077620889--641899999
Q gi|254780804|r   12 KSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH------------------DPFSLVVLNALE--IQKNISTFW   71 (352)
Q Consensus        12 ~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~------------------~~~~~~~~~~~e--~~~d~~~l~   71 (352)
                      +--.+..++| -|||+|.----+....+.+.|.+.-..+                  .-..++.+|+.-  -.+|...++
T Consensus        30 ~a~~~~r~~h-aylf~g~rg~gktt~ari~ak~lnc~~~~~~~pcg~c~~c~~i~~g~~~d~~eidaas~~~v~~~r~l~  108 (696)
T PRK06872         30 NGLKENRLHH-AYLFSGTRGVGKTSIARLFAKGLNCVHGVTATPCGECENCKAIEEGNFIDLIEIDAASRTKVEDTRELL  108 (696)
T ss_pred             HHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHH
T ss_conf             9997198630-475117898888899999999867899999997888622576744787754675056557889999999


Q ss_pred             HHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHH
Q ss_conf             9871788888823999847741-045789889885105656079998526543113566765431121014664420013
Q gi|254780804|r   72 NEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHL  150 (352)
Q Consensus        72 ~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l  150 (352)
                      +.+.-.|--|-.|+.+|+...- ++.....|.+-++.||+++.+|+-..+..|-   -..  -...+.-+.+...+...+
T Consensus       109 ~~~~~~p~~~~~kvy~idevhmls~~~fnallktleepp~~v~f~latt~~~k~---p~t--ilsrc~~f~~~~~~~~~i  183 (696)
T PRK06872        109 DNVQYKPVVGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEYVKFLLATTDPQKL---PIT--ILSRCMQFHLKALDQTQI  183 (696)
T ss_pred             HHCCCCCCCCCEEEEEEEHHHHCCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CHH--HHHHHHHEECCCCCHHHH
T ss_conf             845457767754799970054438999999987502797544899843863227---488--987665300268999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q ss_conf             58898875430256675679999962001235568999999751034443488888775310122111467888764102
Q gi|254780804|r  151 MDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKI  230 (352)
Q Consensus       151 ~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~  230 (352)
                      ...+...+.++|+.++++|+++|+...+|.++...+-++.-+.|.  .+.|+.++|..++|......+|+|+++++.||.
T Consensus       184 ~~~l~~i~~~e~~~~~~~al~~~a~~a~gs~rdalsl~dqai~~~--~g~~~~~~v~~mlg~~~~~~~~~l~~a~~~~d~  261 (696)
T PRK06872        184 AQHLEFILTQENIPFESPALEKLAKAAQGSIRDSLSLTDQAIAMS--NANITLDVVSNMLGLLDDNQPIDILYALQQGNG  261 (696)
T ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCH
T ss_conf             999999999849977999999999975895677888999999975--896169999998588877799999999995589


Q ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHH
Q ss_conf             36999999985311000145899999999999999983025689899998608999976899999998649989999999
Q gi|254780804|r  231 YNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETL  310 (352)
Q Consensus       231 ~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l  310 (352)
                      ...+..++++...|.+...+|.-|...+.++...+..-. .. .               ....+..-+++.+.+.++-.+
T Consensus       262 ~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~q~~~~-~~-~---------------~~~~~~~la~~~~~e~~ql~Y  324 (696)
T PRK06872        262 EKLMKVIQAVAEKGGDWDKLLGEIAEKLHQIAMLQLLPQ-KS-S---------------EETQLGFLAKHISPEDVQFFY  324 (696)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCC-CC-C---------------CHHHHHHHHHHCCHHHHHHHH
T ss_conf             999999999998688999999999999999999985864-57-8---------------547999999857999999999


Q ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             999999999532899989999999999999
Q gi|254780804|r  311 HKIDHRIHLARKKKYLEKNIIFQTILYIAQ  340 (352)
Q Consensus       311 ~~L~~~d~~~K~~~~~~~~il~~~ll~l~~  340 (352)
                      .++...-..+-- ..+.+.-++-.+|++..
T Consensus       325 qi~l~g~~dl~~-apd~~~g~eM~lLRmlA  353 (696)
T PRK06872        325 QVMVSGRKELAF-APNRRIGVEMTLLRALA  353 (696)
T ss_pred             HHHHHHHHHCCC-CCCHHHHHHHHHHHHHH
T ss_conf             999841200456-99646749999999983


No 33 
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=99.61  E-value=6.2e-12  Score=98.06  Aligned_cols=290  Identities=14%  Similarity=0.107  Sum_probs=201.1

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCC--CCEEEEEEHHH---H-HCCHHHHHHHHHCCCCCCC
Q ss_conf             8753210010138479995699658999999999973356667--73077620889---6-4189999998717888888
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHD--PFSLVVLNALE---I-QKNISTFWNEINSTSLFSK   82 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~--~~~~~~~~~~e---~-~~d~~~l~~~~~t~slF~~   82 (352)
                      .+++--.+...+|. |||+|++-.-+...+..+.+.+.....+  ...+..++..+   + .+++..+.+.+.-.|.-|+
T Consensus        15 ~L~~~i~~~rl~HA-yLF~Gp~G~GK~~~A~~~A~~ll~~~~~~~~~D~~~~~~~~~~~I~vd~IR~l~~~~~~~p~~g~   93 (313)
T PRK05564         15 RIDNSIIKGKFSHA-SLIVGEDGIGKSILAKEIANKILGKSEQREYVDIIEYKPINKKSIGVDDIRNIIEEVNKKPYEGD   93 (313)
T ss_pred             HHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCC
T ss_conf             99999987998750-43279998509999999999982899778898658863322569998999999999840862589


Q ss_pred             CEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             239998477410-457898898851056560799985265431135667654-311210146644200135889887543
Q gi|254780804|r   83 KKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEK-FTSVLAISCYPDNKIHLMDLIEESLLI  160 (352)
Q Consensus        83 ~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~-~~~~~~v~~~~~~~~~l~~~i~~~~~~  160 (352)
                      +|+++|.++... .....+|...++.||+++++|+.+.+..+      ...+ ...+..+++.|.+..++..|+.+.   
T Consensus        94 ~KV~II~~ae~m~~~AaNALLKtLEEPP~~t~fIL~t~~~~~------lLpTI~SRCQ~~~f~~l~~~~i~~~L~~~---  164 (313)
T PRK05564         94 KKVIIIYKSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQ------ILDTIKSRCQIYKLNRLSKEDIEKFISYK---  164 (313)
T ss_pred             CEEEEECCHHHHCHHHHHHHHHCCCCCCCCEEEEEEECCHHH------CCCHHHCCCEEEECCCCCHHHHHHHHHHH---
T ss_conf             569998077775899999984550368998589986498354------75778706535668998999999999986---


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             02566756799999620012355689999997510344434888887753101221114678887641023699999998
Q gi|254780804|r  161 GQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFF  240 (352)
Q Consensus       161 ~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l  240 (352)
                       .-.++++++..++...+|.......-++       +.   ...++        ...+.++..++..++....+...+.+
T Consensus       165 -~~~~~~~~~~~~~~~s~G~~~~a~~~~~-------~~---~~~~~--------~~~~~~~l~~~~~~~~~~~~~~~~~~  225 (313)
T PRK05564        165 -YNDIDEENKNSAIAFSDGIPGKVEKFIE-------DD---SLKDI--------RNMSLEILKDIDKSNINIIIKYENFL  225 (313)
T ss_pred             -CCCCCHHHHHHHHHHCCCCHHHHHHHHH-------HH---HHHHH--------HHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             -2589999999999982998799999840-------57---99999--------99999999999867999999999999


Q ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Q ss_conf             53110001458999999999999999830256898999986089999768999999986499899999999999999995
Q gi|254780804|r  241 LASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLA  320 (352)
Q Consensus       241 ~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~  320 (352)
                      ...+.++..++..+...+|.++.++.    .+.. ...       ++......+...+.+|+...+.+++..+.++...+
T Consensus       226 ~~~~~~~~~~l~~l~~~~rD~l~~k~----~~~~-~~~-------~n~d~~~~l~~~a~~~~~~~l~~~~~~l~~a~~~l  293 (313)
T PRK05564        226 ISYKENWEEILTCILSYIRDSLLFKE----TGNN-ELI-------INVDKIEDIKEISEKYSYKKLNKMIEIINDARNNL  293 (313)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHCC----CCCC-CCE-------ECHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_conf             98693499999999999999998515----5983-201-------68889999999985499999999999999999998


Q ss_pred             HCCCCCHHHHHHHHHHHHHH
Q ss_conf             32899989999999999999
Q gi|254780804|r  321 RKKKYLEKNIIFQTILYIAQ  340 (352)
Q Consensus       321 K~~~~~~~~il~~~ll~l~~  340 (352)
                      +. ..++...++.+++++..
T Consensus       294 ~~-n~N~~L~le~lllkl~e  312 (313)
T PRK05564        294 SS-NTNSTLVFDSMLIKMQE  312 (313)
T ss_pred             HH-CCCHHHHHHHHHHHHHH
T ss_conf             74-59989999999998843


No 34 
>PRK08770 DNA polymerase III subunits gamma and tau; Validated
Probab=99.60  E-value=1.8e-11  Score=95.08  Aligned_cols=302  Identities=10%  Similarity=0.043  Sum_probs=219.8

Q ss_pred             HHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC------------------CCCCCEEEEEEHHH--HHCCHHHHHHH
Q ss_conf             10010138479995699658999999999973356------------------66773077620889--64189999998
Q gi|254780804|r   14 TKNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT------------------YHDPFSLVVLNALE--IQKNISTFWNE   73 (352)
Q Consensus        14 ~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~------------------~~~~~~~~~~~~~e--~~~d~~~l~~~   73 (352)
                      -.+..++| -|||.|.----+-...+.+.|.+.-.                  .+.-..++.+|+.-  -.+|...|++.
T Consensus        32 ~~~~~~~~-a~lf~g~rg~gkt~~ar~~a~~lnc~~~~~~~pc~~c~~c~~i~~~~~~d~~e~daas~~~v~~~r~~~~~  110 (663)
T PRK08770         32 LDSGRVHH-AFLFTGTRGVGKTTIARIFAKSLNCETGTSADPCGQCPACLDIDAGRYIDLLEIDAASNTGVDDVREVIEN  110 (663)
T ss_pred             HHCCCCCE-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             97099740-47622799888889999999986789999999787787789885489886588646765888999999984


Q ss_pred             HHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             71788888823999847741-04578988988510565607999852654311356676543112101466442001358
Q gi|254780804|r   74 INSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMD  152 (352)
Q Consensus        74 ~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~  152 (352)
                      +.-.|--|--|+.+|+...- ++.....|.+-++.||+++.+|+-..+..|-   -..  -...+.-+.+......++..
T Consensus       111 ~~~~p~~~~~kvy~idevhmls~~~fna~lktleepp~~v~f~~att~~~k~---p~t--~~src~~f~~~~~~~~~~~~  185 (663)
T PRK08770        111 AQYMPSRGKFKVYLIDEVHMLSKAAFNALLKTLEEPPEHVKFLLATTDPQKL---PVT--VLSRCLQFNLKRLDEDQIQG  185 (663)
T ss_pred             CCCCCCCCCEEEEEEECHHHCCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CHH--HHHHHHHCCCCCCCHHHHHH
T ss_conf             4358877743699970043328999999987402786442899854873337---489--99888763437799999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH
Q ss_conf             89887543025667567999996200123556899999975103444348888877531012211146788876410236
Q gi|254780804|r  153 LIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYN  232 (352)
Q Consensus       153 ~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~  232 (352)
                      .+...+.++|+.++++|+..|+....|.++...+-++.-..|.  ++.|+.++|..++|......+++|+++++.||...
T Consensus       186 ~l~~~~~~e~~~~~~~~~~~~~~~~~gs~rd~lsl~~q~~~~~--~~~~~~~~v~~mlg~~~~~~~~~l~~al~~~d~~~  263 (663)
T PRK08770        186 QMTRILAAEQIESDPSAIVQLSKAADGSLRDGLSLLDQAIAYA--GGALREDVVRTMLGTVDRTQVGAMLQALADGDGAR  263 (663)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--CCCCCHHHHHHHHCCCCHHHHHHHHHHHHHCCHHH
T ss_conf             9999999839976999999999974785677888999999866--89768999999848888789999999999668999


Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             99999998531100014589999999999999998302568989999860899997689999999864998999999999
Q gi|254780804|r  233 AIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHK  312 (352)
Q Consensus       233 a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~  312 (352)
                      .+..++++-..|.+...+|.-|...+.++...+..-...  .             .........-+++++.+.++-.+.+
T Consensus       264 ~~~~~~~~~~~~~~~~~~l~~l~~~~~~~a~~q~~~~~~--~-------------~~~~~~~~~lA~~~~~e~vQL~YQI  328 (663)
T PRK08770        264 LLQVVAALAEFSPDWSGVLEALAEALHRIQVQQLVPSVA--F-------------VGDGIDPTPFAAQLRPEVVQLWYQM  328 (663)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCC--C-------------CCCHHHHHHHHHCCCHHHHHHHHHH
T ss_conf             999999999868899999999999999999998463012--4-------------5435679999972899999999999


Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             999999953289998999999999999
Q gi|254780804|r  313 IDHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       313 L~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      ....-..+-- ..+...-++-++|++.
T Consensus       329 aL~Gr~dL~~-APd~~~gfeM~LLRml  354 (663)
T PRK08770        329 ALNGRRDLYL-APSPRAGFEMAVLRML  354 (663)
T ss_pred             HHHHHHHCCC-CCCHHHHHHHHHHHHH
T ss_conf             9830432556-9866786999999984


No 35 
>KOG0989 consensus
Probab=99.53  E-value=3.3e-11  Score=93.30  Aligned_cols=275  Identities=14%  Similarity=0.092  Sum_probs=190.3

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCC-----EEEEEEHH----HHHCCHHHHHHHHH-CC-CCCCCCEEEEEE
Q ss_conf             847999569965899999999997335666773-----07762088----96418999999871-78-888882399984
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPF-----SLVVLNAL----EIQKNISTFWNEIN-ST-SLFSKKKIILIE   89 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~-----~~~~~~~~----e~~~d~~~l~~~~~-t~-slF~~~klIii~   89 (352)
                      .+.|||||+.---+-..+..+...+..+.--+.     |.....|.    +-..+++.+..... .. .--..-|+||++
T Consensus        57 lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlD  136 (346)
T KOG0989          57 LPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILD  136 (346)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHCCCCCCCCCCHHHHHCCHHHHHHCCCCCCCCCCCCCEEEEEE
T ss_conf             86078668999867689999999855742355542431366001431006652379987502556567889863289974


Q ss_pred             CCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCC-HHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCH
Q ss_conf             7741-0457898898851056560799985265431-1356676543112101466442001358898875430256675
Q gi|254780804|r   90 NLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKN-NTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISK  167 (352)
Q Consensus        90 ~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~-~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~  167 (352)
                      ++.. ..+...+|-..+++.+..+.+++....+++- ..+.      ..+.-+.|.+....++..-++..+.++|+.+|+
T Consensus       137 Ecdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~------SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~  210 (346)
T KOG0989         137 ECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLV------SRCQKFRFKKLKDEDIVDRLEKIASKEGVDIDD  210 (346)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHCCHHHH------HHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCH
T ss_conf             16453099999999998625466599997388564772877------467771288764478999999998885899787


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC-HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf             67999996200123556899999975103444348-88887753101221114678887641023699999998531100
Q gi|254780804|r  168 EAKQILLANLGGDRIASRNELQKLSSYCLEDILIT-EQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMP  246 (352)
Q Consensus       168 ~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It-~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~  246 (352)
                      +|+.+++..++||++....-|+-+++  ++ ++|| .-.++.+.+...+..+-++++.+.++|..+..+...++...|.+
T Consensus       211 ~al~~I~~~S~GdLR~Ait~Lqsls~--~g-k~It~~~~~e~~~GvVp~~~l~~lle~a~S~d~~~~v~~~Rei~~sg~~  287 (346)
T KOG0989         211 DALKLIAKISDGDLRRAITTLQSLSL--LG-KRITTSLVNEELAGVVPDEKLLDLLELALSADTPNTVKRVREIMRSGYS  287 (346)
T ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHC--CC-CCCCHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC
T ss_conf             89999999738728999999998610--47-6364588999986268789999999999706838899999999982467


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             014589999999999999998302568989999860899997689999999864998999999999999999953
Q gi|254780804|r  247 SHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLAR  321 (352)
Q Consensus       247 ~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K  321 (352)
                      |..++++|....-       ..  -|.+..+... ..    +   ..+..+-+.-....++..+..|.+++.+++
T Consensus       288 ~~~lmsQLa~vi~-------~~--~g~~d~~k~~-~~----~---kl~~~~~~~~dg~~l~~~L~~L~~~~~ql~  345 (346)
T KOG0989         288 PLQLMSQLAEVIM-------DI--IGLSDEQKAQ-IS----L---KLFTRDKRLEDGEDLELALKDLLEAEKQLR  345 (346)
T ss_pred             HHHHHHHHHHHHH-------HC--CCCCHHHHHH-HH----H---HHHHCCCHHHCCHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999987-------05--5656178999-99----9---997026122001258999999999899974


No 36 
>PRK13342 recombination factor protein RarA; Reviewed
Probab=99.44  E-value=6.1e-10  Score=84.85  Aligned_cols=274  Identities=14%  Similarity=0.096  Sum_probs=178.5

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHH-HHCCHHHHHHHHHCCCCCCCCE
Q ss_conf             378875321001013847999569965899999999997335666773077620889-6418999999871788888823
Q gi|254780804|r    6 SHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALE-IQKNISTFWNEINSTSLFSKKK   84 (352)
Q Consensus         6 ~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e-~~~d~~~l~~~~~t~slF~~~k   84 (352)
                      ....|++..++....+  .+|||+.---+...++.|.+....      ....+.+.. -..|...+++.+.. ...+.+.
T Consensus        24 ~~~~L~~~i~~~~~~s--~Il~GPPG~GKTTlA~iiA~~~~~------~f~~lnA~~~gv~dir~ii~~a~~-~~~~~~t   94 (417)
T PRK13342         24 PGKPLRRMIEAGRLSS--MILWGPPGTGKTTLARIIAGATDA------EFEALSAVTSGVKDLREVIEEAKQ-SRLGRRT   94 (417)
T ss_pred             CCHHHHHHHHCCCCCE--EEEECCCCCCHHHHHHHHHHHHCC------CEEEEECCCCCHHHHHHHHHHHHH-HHCCCCE
T ss_conf             9719999997699975--998896999899999999998689------889961410388999999999886-3148965


Q ss_pred             EEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH---
Q ss_conf             999847741-0457898898851056560799985265431135667654311210146644200135889887543---
Q gi|254780804|r   85 IILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLI---  160 (352)
Q Consensus        85 lIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~---  160 (352)
                      +++|+...- +|...+.|..++++   .+++++-+.--.+...+...+  ...+..+.+.+++..++...++..+..   
T Consensus        95 ilfiDEIHRfnK~QQD~LLp~vE~---g~iiLIgATTENP~f~in~aL--lSRc~vf~l~~L~~~di~~iL~ral~~e~~  169 (417)
T PRK13342         95 ILFIDEIHRFNKAQQDALLPHVED---GTITLIGATTENPSFEVNPAL--LSRAQVFELKPLSEEDLEQLLKRALEDERG  169 (417)
T ss_pred             EEEEECHHHCCHHHHHHHHHHHHC---CCEEEEEECCCCCHHHCCHHH--HHHHHHEECCCCCHHHHHHHHHHHHHHHHC
T ss_conf             999978200588999999875112---656999741579225348989--856570020589999999999999987743


Q ss_pred             --CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCC------C----CHHHHHHHHHHH
Q ss_conf             --0256675679999962001235568999999751034443488888775310122------1----114678887641
Q gi|254780804|r  161 --GQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHV------L----YIEEIINATIQG  228 (352)
Q Consensus       161 --~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~------~----~if~L~dai~~~  228 (352)
                        .++.++++|+.+|++.++||.+.+-|-||-+..-..+...||.++|..++....-      .    .+..|..++-..
T Consensus       170 ~~~~i~i~~~al~~i~~~s~GDaR~aLN~LE~a~~~~~~~~~i~~~~~~~~~~~~~~~yDk~gd~HYd~iSAf~KSiRGS  249 (417)
T PRK13342        170 LGRKLELDDEALDALARLADGDARRALNLLELAAAAAAGGEVITLELLEEALQRRAARYDKDGDEHYDLISALHKSIRGS  249 (417)
T ss_pred             CCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCC
T ss_conf             37887769999999998149859999999999985258997348999999984410357778634789999999985169


Q ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             02369999999853110001458999999999999999830256898999986089999768999999986499899999
Q gi|254780804|r  229 KIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRE  308 (352)
Q Consensus       229 ~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~  308 (352)
                      |...|+.++.+++..|++|..|.       |+|+.+... +.|..++....-          .....+++.+.+.++.+-
T Consensus       250 DpdAAlyyLarml~~GEDp~~Ia-------RRLii~AsE-DIGlAdP~al~~----------a~~a~~a~~~iG~PE~~i  311 (417)
T PRK13342        250 DPDAALYYLARMLEAGEDPLFIA-------RRLVIIASE-DIGLADPNALQV----------AVAAADAVERLGMPEGRI  311 (417)
T ss_pred             CCCHHHHHHHHHHHCCCCHHHHH-------HHHHHHHHH-HHCCCCHHHHHH----------HHHHHHHHHHHCCHHHHH
T ss_conf             95489999999997599979999-------999998854-403678789999----------999999999858778899


Q ss_pred             HHH
Q ss_conf             999
Q gi|254780804|r  309 TLH  311 (352)
Q Consensus       309 ~l~  311 (352)
                      ++.
T Consensus       312 ~La  314 (417)
T PRK13342        312 ALA  314 (417)
T ss_pred             HHH
T ss_conf             999


No 37 
>PRK04195 replication factor C large subunit; Provisional
Probab=99.43  E-value=2.9e-10  Score=86.96  Aligned_cols=200  Identities=22%  Similarity=0.225  Sum_probs=140.9

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHH--HCCHHHHH-HHHHCCCCCC-CCEEEEEECCCCH--
Q ss_conf             8479995699658999999999973356667730776208896--41899999-9871788888-8239998477410--
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEI--QKNISTFW-NEINSTSLFS-KKKIILIENLSTE--   94 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~--~~d~~~l~-~~~~t~slF~-~~klIii~~~~~~--   94 (352)
                      +..+||||+.---+...+..+.+.++      +++..+++.+.  ..+...+. ....+.|+|+ .+|+|+++++...  
T Consensus        40 ~k~lLL~GPpGvGKTT~a~~lAk~~g------~~viElNASD~R~~~~I~~~i~~~~~~~sl~~~~~KlIIlDEvD~l~~  113 (403)
T PRK04195         40 KKALLLYGPPGVGKTSLAHALANDYG------WEVIELNASDQRTKDVIERVAGEASTSGSLFGAKRKLILLDEVDGIHG  113 (403)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHC------CCEEEECCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCC
T ss_conf             74699889399879999999999849------985997710114789999999987606887788734999634344572


Q ss_pred             ---HHHHHHHHHHHHCCCCCEEEEEEECCC-CCCH-HHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHH
Q ss_conf             ---457898898851056560799985265-4311-35667654311210146644200135889887543025667567
Q gi|254780804|r   95 ---KKVLDCLEEIIIKNICNHIIIIKSNEI-KKNN-TLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEA  169 (352)
Q Consensus        95 ---k~~~~~l~~~~~~~~~~~~li~~a~~l-~k~~-kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a  169 (352)
                         ......|..++.+..  ..+|+.+.+. ++.. .++      ..+..+.|.++...++...++..++++|+++++++
T Consensus       114 ~~d~gg~~al~~~ik~s~--~PiIli~Nd~~~~~~~~lr------s~c~~i~F~~~~~~~I~~~L~~I~~~Egi~i~~~a  185 (403)
T PRK04195        114 NADRGGVRAILEIIKKAK--NPIILTANDPYDPSLRPLR------NACLMIEFKRLSKRSIVPVLKRICRKEGIECEEEA  185 (403)
T ss_pred             HHHHHHHHHHHHHHHCCC--CEEEEEECCCCCCCHHHHH------HHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCHHH
T ss_conf             444799999999985488--7089982684556717799------76612217994999999999999997699999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHH-HHHHHHHHHH
Q ss_conf             99999620012355689999997510344434888887753101221114678887641-0236999999
Q gi|254780804|r  170 KQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQG-KIYNAIMLAD  238 (352)
Q Consensus       170 ~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~-~~~~a~~~l~  238 (352)
                      ++.+++.++||++.+.|.|+-++   .+.+.++.+++.. .....+.++|+.++.++.+ +..+|...+.
T Consensus       186 L~~Ia~~s~GDlR~aIN~LQ~~~---~~~~~~~~~~~~~-~~rd~~~~if~~~~~if~~~~~~~a~~~~~  251 (403)
T PRK04195        186 LREIAERSGGDLRSAINDLQAIA---EGGGRITLDDVKT-GERDREESIFEALDAVFKSRNYDQALEASY  251 (403)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH---CCCCCCCHHHHHH-HCCCCCCCHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             99999987973999999999997---4899775666664-135231438999999975698999999885


No 38 
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=99.40  E-value=7.6e-09  Score=77.60  Aligned_cols=287  Identities=15%  Similarity=0.150  Sum_probs=179.1

Q ss_pred             HHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC--------------------CCCCCEEEEEEHHHH-HC
Q ss_conf             788753210010138479995699658999999999973356--------------------667730776208896-41
Q gi|254780804|r    7 HKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT--------------------YHDPFSLVVLNALEI-QK   65 (352)
Q Consensus         7 ~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~--------------------~~~~~~~~~~~~~e~-~~   65 (352)
                      .+.+++.-.+..++|. |||+|++-.-+...+..+.+.+.-.                    .+.++-...=++..+ .+
T Consensus        15 ~~~L~~~i~~~rl~HA-~Lf~Gp~G~GK~~~A~~~A~~LlC~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~i~id   93 (329)
T PRK08058         15 VKMLQNSIAKNRLAHA-YLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKRIESGNHPDVHLVAPDGQSIKKD   93 (329)
T ss_pred             HHHHHHHHHCCCCCCE-EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCCHH
T ss_conf             9999999985996615-655789998899999999999739999999988788899998769999767745661407799


Q ss_pred             CHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHH-HHHHHHCCCC
Q ss_conf             89999998717888888239998477410-457898898851056560799985265431135667654-3112101466
Q gi|254780804|r   66 NISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEK-FTSVLAISCY  143 (352)
Q Consensus        66 d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~-~~~~~~v~~~  143 (352)
                      ++..+.+.+...|+-|++|++||.++... .....+|...++.||+++++|+.+.+..+      ...+ ...+..+++.
T Consensus        94 qiR~L~~~~~~~p~~g~~KV~II~~Ae~m~~~AaNALLKtLEEPp~~t~fIL~t~~~~~------lLpTI~SRCq~i~f~  167 (329)
T PRK08058         94 QIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGDTTAILLTENKHQ------ILPTILSRCQVVEFR  167 (329)
T ss_pred             HHHHHHHHHCCCCCCCCCEEEEEECHHHHCHHHHHHHHHHHHCCCCCCEEEEEECCHHH------HHHHHHHCCEEEECC
T ss_conf             99999999643875788679997347762999999999986468978679987299666------436886314256588


Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             44200135889887543025667567999996200123556899999975103444348888877531012211146788
Q gi|254780804|r  144 PDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIIN  223 (352)
Q Consensus       144 ~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~d  223 (352)
                      |+...++..|+.+    .|  ++++....++... ++....   +   .+ ..+.   ...+.        ...+.++..
T Consensus       168 ~~~~~~i~~~L~~----~~--i~~~~a~l~a~~~-gs~~~A---~---~l-~~~~---~~~~~--------~~~~~~~~~  222 (329)
T PRK08058        168 PLPPESLIQRLQE----EG--ISESLATLLAQLT-NSVEEA---L---AL-SEDD---WFAQA--------RALVIKLYE  222 (329)
T ss_pred             CCCHHHHHHHHHH----CC--CCHHHHHHHHHHC-CCHHHH---H---HH-HCCH---HHHHH--------HHHHHHHHH
T ss_conf             9999999999998----79--9989999999878-999999---9---88-4261---58999--------999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHH---HHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHC
Q ss_conf             8764102369999999853---1100014589999999999999998302568989999860899997689999999864
Q gi|254780804|r  224 ATIQGKIYNAIMLADFFLA---SKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRI  300 (352)
Q Consensus       224 ai~~~~~~~a~~~l~~l~~---~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~  300 (352)
                      .+..++....+..-+.+..   .......++..+...||.++..+.     |.+.. .       ++....+.+.+.+++
T Consensus       223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~rD~l~~~~-----~~~~~-~-------~~~d~~~~l~~~a~~  289 (329)
T PRK08058        223 ALHKGDLLSFVFVQTKWMPLFKEKDQQQLGLDLLLLIYRDLLYVQL-----GEEDR-L-------VFREQKEELQQLALS  289 (329)
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHC-----CCCCH-H-------HCHHHHHHHHHHHHC
T ss_conf             9976889999999999998701889999999999999999998741-----75200-1-------179999999999853


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Q ss_conf             998999999999999999953289998999999999999
Q gi|254780804|r  301 WNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILYIA  339 (352)
Q Consensus       301 ~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~  339 (352)
                      |+...+.+++..+.++...++. ..+.+..++.++++|.
T Consensus       290 ~~~~~l~~~~~~i~e~~~~l~~-N~N~~L~lE~lll~L~  327 (329)
T PRK08058        290 YSQQQIVAALELILEAKRRLNS-NVNFQLVMEQLVLRLQ  327 (329)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_conf             9999999999999999999985-5899999999999642


No 39 
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=99.36  E-value=2.5e-09  Score=80.78  Aligned_cols=296  Identities=11%  Similarity=0.061  Sum_probs=179.4

Q ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC-------------------CCCEEEEEEHHHH-HCCHHHHHHHHHCCC
Q ss_conf             13847999569965899999999997335666-------------------7730776208896-418999999871788
Q gi|254780804|r   19 LSHFVFIFYGSDKGLIFELINQFKKNISITYH-------------------DPFSLVVLNALEI-QKNISTFWNEINSTS   78 (352)
Q Consensus        19 ~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~-------------------~~~~~~~~~~~e~-~~d~~~l~~~~~t~s   78 (352)
                      +.|. |||+|++---+...+..+.+.+.-+..                   .++....=++..+ .+++..+.+.+...|
T Consensus        38 ~~HA-yLF~Gp~G~Gk~~~A~~~A~~l~C~~~~~~~cg~C~~C~~i~~g~hpDv~~i~p~~~~i~id~iR~l~~~~~~~p  116 (395)
T PRK07940         38 MTHA-WLFTGPPGSGRSNAARAFAAALQCTDPGVPGCGECRACRTVLAGTHPDVRVVVPEGLSIGVDEVREIVQIAARRP  116 (395)
T ss_pred             CCEE-EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHCC
T ss_conf             6603-763689987889999999999669999999998787899987689987189826877688999999999985273


Q ss_pred             CCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHH-HHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             8888239998477410-457898898851056560799985265431135667654-31121014664420013588988
Q gi|254780804|r   79 LFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEK-FTSVLAISCYPDNKIHLMDLIEE  156 (352)
Q Consensus        79 lF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~-~~~~~~v~~~~~~~~~l~~~i~~  156 (352)
                      .-|.+|++||+++... ......|.+.++.||+++++|+.+.+..+      +..+ ...+..++|.++....+.+|+.+
T Consensus       117 ~~~~~kv~ii~~a~~m~~~a~NalLKtLEEPp~~~~fiL~t~~~~~------llpTI~SRcq~~~f~~~~~~~i~~~L~~  190 (395)
T PRK07940        117 TTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSVED------VLPTIRSRCRHVALRTPSVEAVADVLVR  190 (395)
T ss_pred             CCCCCEEEEEECHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHH------HHHHHHHHHEECCCCCCCHHHHHHHHHH
T ss_conf             0379559998077874899999999852178888699987399787------4468874400023799999999999987


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHCCC-CCC---------CCHHHHHHHHHCCC
Q ss_conf             7543025667567999996200123556------------8999999751034-443---------48888877531012
Q gi|254780804|r  157 SLLIGQKSISKEAKQILLANLGGDRIAS------------RNELQKLSSYCLE-DIL---------ITEQHVKDIICDTH  214 (352)
Q Consensus       157 ~~~~~g~~i~~~a~~~L~~~~g~d~~~l------------~~EleKL~ly~~~-~~~---------It~~dI~~~v~~~~  214 (352)
                      .     ..++++.+..++...+++....            ..++-.+..-..+ ..-         ...+++........
T Consensus       191 ~-----~gi~~~~A~~aA~~s~G~igrA~~la~d~~~~~~R~~~l~l~~~~~~~~~al~~a~~Ll~~~~~~~~~~~~~~d  265 (395)
T PRK07940        191 R-----DGVDPETAQWAARASGGHIGRARRLATDEEARARRARALRLPLRLARVSDAVAAAEELVKAAEAEAKALTAERD  265 (395)
T ss_pred             C-----CCCCHHHHHHHHHHHCCCHHHHHHHHCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             0-----19998999999998089889999980688899999999999997037168999999999999999999888776


Q ss_pred             CCCHHHHHHHHHHHHHHH--------HHHHHHHHHHHH---------CCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Q ss_conf             211146788876410236--------999999985311---------000145899999999999999983025689899
Q gi|254780804|r  215 VLYIEEIINATIQGKIYN--------AIMLADFFLASK---------MPSHALLHGFLQKFQLLEKIHIIKECSNISFEK  277 (352)
Q Consensus       215 ~~~if~L~dai~~~~~~~--------a~~~l~~l~~~g---------~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~  277 (352)
                      +....++..++..+...+        ....+..+....         ...-.+|..+..+||.++.++.     |.+.  
T Consensus       266 ~~e~e~l~~~lg~~~~~~~~~~~~~~~~~~l~~le~~qK~r~~r~~~D~Ld~~L~~L~~~~RD~L~~~~-----g~~~--  338 (395)
T PRK07940        266 EAETEELRTALGAGGTGKGTAKAPRGAAGALKDLEKRQKRRATRASRDALDRALIDLAGLYRDVLLVQL-----GAGV--  338 (395)
T ss_pred             HHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----CCCC--
T ss_conf             899999999843443330133211778999999999876677777777899999999999999999860-----8973--


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             998608999976899999998649989999999999999999532899989999999999999
Q gi|254780804|r  278 IIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQ  340 (352)
Q Consensus       278 ~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~  340 (352)
                            +-+++-..+.+..++++++..++.+++..+.++...++. ...+...++.++++|.+
T Consensus       339 ------~lin~d~~~~l~~~A~~~s~~~ll~~l~~i~~ar~~L~~-Nvnp~L~LE~lll~L~q  394 (395)
T PRK07940        339 ------GLVHPDMADRLAELAARSTPEGLLRCIDAVLACREALAV-NVKPLLAVEAMVAALRQ  394 (395)
T ss_pred             ------CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_conf             ------555866999999999749999999999999999999884-59979999999999864


No 40 
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=99.31  E-value=1.2e-08  Score=76.19  Aligned_cols=297  Identities=13%  Similarity=0.102  Sum_probs=176.8

Q ss_pred             CCCCCH--HHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC--------------------CCCCCEEEEE
Q ss_conf             976333--788753210010138479995699658999999999973356--------------------6677307762
Q gi|254780804|r    1 MATIES--HKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT--------------------YHDPFSLVVL   58 (352)
Q Consensus         1 ~~~i~~--~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~--------------------~~~~~~~~~~   58 (352)
                      |+-||+  .+..+.+-....++|. |||+|++---+...+..+.+.+.-.                    .+.++-...-
T Consensus         1 ~~~~yPW~~~~w~~l~~~~rl~HA-~Lf~G~~G~GK~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~~~HPD~~~i~p   79 (328)
T PRK05707          1 MAEIYPWQQSLWQQLAGRGRHAHA-YLLHGPAGIGKRALAERLAAFLLCEAPQGGGACGSCKGCQLLAAGSHPDNFVLEP   79 (328)
T ss_pred             CCCCCCCCHHHHHHHHHCCCCCEE-EEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEEC
T ss_conf             986766748999999977982204-6447999867999999999998489999989998888999987589998799842


Q ss_pred             EHH--HH-HCCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHH
Q ss_conf             088--96-4189999998717888888239998477410-4578988988510565607999852654311356676543
Q gi|254780804|r   59 NAL--EI-QKNISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKF  134 (352)
Q Consensus        59 ~~~--e~-~~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~  134 (352)
                      ++.  .+ .+.+..+.+.+...|..|++|+++|.++... .....+|-+.++.||+++++|+.+....+=-   -.+  .
T Consensus        80 e~~~~~I~IdqIR~l~~~~~~~~~~g~~KV~iI~~Ae~m~~~AaNALLKtLEEPp~~t~fiL~t~~~~~lL---pTI--~  154 (328)
T PRK05707         80 EEADKPIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGQTVLLLISHQPSRLL---PTI--K  154 (328)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEEEHHHHHCHHHHHHHHHHHHCCCCCEEEEEEECCHHHCH---HHH--H
T ss_conf             66677697999999999983176678957999502877389999999998507898759998609934482---588--7


Q ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCC
Q ss_conf             11210146644200135889887543025667567999996200123556899999975103444348888877531012
Q gi|254780804|r  135 TSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTH  214 (352)
Q Consensus       135 ~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~  214 (352)
                      ..+..+.+.+++..++..|+.+...    ..+.+.+..++...+|......      .+...+.    .+.-..+     
T Consensus       155 SRCq~~~~~~p~~e~~~~~L~~~~~----~~~~~~a~~ll~la~G~p~~A~------~l~~~~~----~~~r~~~-----  215 (328)
T PRK05707        155 SRCQQLACPLPSNEPSLQWLQQALP----ESDAEERIELLTLAAGSPLRAL------QLHAQGV----REQRARV-----  215 (328)
T ss_pred             HCCEEEECCCCCHHHHHHHHHHHCC----CCCHHHHHHHHHHCCCCHHHHH------HHHCCCH----HHHHHHH-----
T ss_conf             4141334899899999999997556----5578999999997499999999------8748668----9999999-----


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHH
Q ss_conf             21114678887641023699999998531100014589999999999999998302568989999860899997689999
Q gi|254780804|r  215 VLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNIL  294 (352)
Q Consensus       215 ~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~  294 (352)
                          .+.+..+..+.. ..........  +.+...++..+...++.++.++...     +....       ++.-..+.+
T Consensus       216 ----~~~l~~l~~~~~-~~~~~~~~~~--k~~~~~~l~~l~~~~~D~l~~~~~~-----~~~~l-------~~~d~~~~i  276 (328)
T PRK05707        216 ----VDGVKKLLKQQQ-SASQLAESWL--KVPLPLLFDWFCDWAHLILRYQLTQ-----DEEGL-------GLADMRKVL  276 (328)
T ss_pred             ----HHHHHHHHHCCC-CHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHCC-----CHHHC-------CCHHHHHHH
T ss_conf             ----999999983878-8999999975--0579999999999999999998259-----71410-------478899999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHH
Q ss_conf             99986499899999999999999995328-999899999999999996
Q gi|254780804|r  295 QESLRIWNKNLVRETLHKIDHRIHLARKK-KYLEKNIIFQTILYIAQT  341 (352)
Q Consensus       295 ~~q~~~~s~~~l~~~l~~L~~~d~~~K~~-~~~~~~il~~~ll~l~~~  341 (352)
                      +..+++++..++..++..+.++-..+... ..+.+.+++.++++.++.
T Consensus       277 ~~la~~~s~~~l~~~~~~l~~~r~~l~~~~NvN~~L~lE~Lll~~~~L  324 (328)
T PRK05707        277 QYLAQKSPQAKVLALQQWLLEQRQKVLGKANLNRVLLLEALLVQWAGL  324 (328)
T ss_pred             HHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC
T ss_conf             999872999999999999999999986369988899999999998574


No 41 
>pfam12169 DNA_pol3_gamma3 DNA polymerase III subunits gamma and tau domain III. This domain family is found in bacteria, and is approximately 110 amino acids in length. The family is found in association with pfam00004. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau.
Probab=99.17  E-value=1.8e-09  Score=81.68  Aligned_cols=132  Identities=12%  Similarity=0.137  Sum_probs=113.2

Q ss_pred             CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
Q ss_conf             48888877531012211146788876410236999999985311000145899999999999999983025689899998
Q gi|254780804|r  201 ITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQ  280 (352)
Q Consensus       201 It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~  280 (352)
                      ||.++|.+++|......+++|+++++.||..+++..++++...|.+|..++..+..++|.+..++.....    . ..  
T Consensus         1 It~~~V~~mLG~~~~~~l~~L~~aI~~~d~~~~l~~l~~l~~~G~d~~~~l~~L~~~~r~l~~~k~~~~~----~-~~--   73 (143)
T pfam12169         1 VSAAQVRDMLGLADRGRVIDLLEAILEGDAAAALAEFRDQYAAGADPVVVLRDLLELLHLLTRLKIAPDA----A-DD--   73 (143)
T ss_pred             CCHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCC----C-CC--
T ss_conf             9799999984899889999999999828999999999999987989999999999999999999867630----0-01--


Q ss_pred             HHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             608999976899999998649989999999999999999532899989999999999999631
Q gi|254780804|r  281 KTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTAC  343 (352)
Q Consensus       281 ~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~  343 (352)
                         +.+-....+.+.++++.|+.+.+.+++..+.++...+|.+ ..+...++-+++++|..+.
T Consensus        74 ---~~~~~~~~~~l~~~a~~~~~~~L~~~~qil~~~~~el~~s-~~p~~~lEm~llRl~~~~~  132 (143)
T pfam12169        74 ---LSLPEEERERIAALAKKLSPEVLSRLWQMLLKGIEEVKNA-PDPRQAAEMALLRLAYAAD  132 (143)
T ss_pred             ---CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHCCC
T ss_conf             ---2257788999999986067999999999999999997428-8869999999999998375


No 42 
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=99.10  E-value=7.9e-07  Score=64.26  Aligned_cols=284  Identities=9%  Similarity=0.012  Sum_probs=162.8

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC--------------------CCCCEEEEE-EHHHHH-CC
Q ss_conf             87532100101384799956996589999999999733566--------------------677307762-088964-18
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY--------------------HDPFSLVVL-NALEIQ-KN   66 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~--------------------~~~~~~~~~-~~~e~~-~d   66 (352)
                      +.+....+ ..+| -|||+|++-.-+...+..+.+.+.-..                    +.++-...- +++.+. ++
T Consensus        13 l~~~~~~~-r~~H-A~L~~G~~G~Gk~~la~~~a~~llC~~~~~~~~Cg~C~sC~l~~~g~HPD~~~i~~~~~k~I~vd~   90 (324)
T PRK06871         13 ITQTFLQG-RGHH-ALLFKADSGLGTEQLIRALAQWLMCQAPGDEQPCGQCHSCHLFQAGNHPDFHILEPIDGKDIGVDQ   90 (324)
T ss_pred             HHHHHHCC-CCCE-EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCHHH
T ss_conf             99999869-9543-787689999789999999999982899999998888989999973899987998467888788999


Q ss_pred             HHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             9999998717888888239998477410-457898898851056560799985265431135667654311210146644
Q gi|254780804|r   67 ISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPD  145 (352)
Q Consensus        67 ~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~  145 (352)
                      +..+.+.+...|.-|+.|+++|.++... .....+|.+.++.||+++++|+.+....+=   -..+  ...+..+.+.++
T Consensus        91 IR~l~~~~~~~~~~g~~KV~iI~~ae~m~~~AaNALLKtLEEPp~~~~fiL~t~~~~~l---l~TI--~SRCq~~~~~~p  165 (324)
T PRK06871         91 VREINEKVSQFAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSASL---LATI--YSRCQTWLIHVP  165 (324)
T ss_pred             HHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCC---CCHH--HHCCCCEECCCC
T ss_conf             99999998646220596699975888857999999999833898783899987870103---2408--626612008994


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             20013588988754302566756799999620012355689999997510344434888887753101221114678887
Q gi|254780804|r  146 NKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINAT  225 (352)
Q Consensus       146 ~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai  225 (352)
                      +..+...|+.+..     ..+..++...+...+|.......      +...+.-..-.+-+..+.......+.+.++.  
T Consensus       166 ~~~~~~~wL~~~~-----~~~~~~~~~al~~~~g~pl~A~~------~~~~~~~~~r~~~~~~l~~~~~~~~~~~ll~--  232 (324)
T PRK06871        166 EEQIALDWLQAQS-----SGEIQEIQTALRINYGRPLLALT------FLEQGLLEQRKTFLRQFWLFYRRRSPLELLP--  232 (324)
T ss_pred             CHHHHHHHHHHHC-----CCCHHHHHHHHHHCCCCHHHHHH------HHCCCHHHHHHHHHHHHHHHHCCCCHHHHHH--
T ss_conf             9999999999746-----88729999999976998799999------8687799999999999999971689999999--


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHH
Q ss_conf             64102369999999853110001458999999999999999830256898999986089999768999999986499899
Q gi|254780804|r  226 IQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNL  305 (352)
Q Consensus       226 ~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~  305 (352)
                                   .+  ..+.....+.-|...++..++.+.     |.....        ++.-..+.+.+.+.++|...
T Consensus       233 -------------~~--~k~~~~~~L~wL~~~l~D~lk~k~-----g~~~~~--------in~D~~~~i~~la~~~s~~~  284 (324)
T PRK06871        233 -------------LF--DKEKVLQQLDWLLAFLSDALKAKL-----DIDSGW--------INQDLGRGILQFSQQQSAQG  284 (324)
T ss_pred             -------------HH--CCCCHHHHHHHHHHHHHHHHHHHC-----CCCCCE--------ECHHHHHHHHHHHHHCCHHH
T ss_conf             -------------97--514588899999999999999844-----887560--------75889999999998659999


Q ss_pred             HHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHH
Q ss_conf             999999999999995328-99989999999999999
Q gi|254780804|r  306 VRETLHKIDHRIHLARKK-KYLEKNIIFQTILYIAQ  340 (352)
Q Consensus       306 l~~~l~~L~~~d~~~K~~-~~~~~~il~~~ll~l~~  340 (352)
                      +.+.+..+.++-.++... +.+.+.++.+.++++..
T Consensus       285 L~~~~~~l~~~r~~L~~~~~lN~eLll~~~L~~l~~  320 (324)
T PRK06871        285 LLKAIQIMQKVRSDLLQINAVNQELILLDGLTRLVT  320 (324)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHH
T ss_conf             999999999999998445787899999999999999


No 43 
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=99.07  E-value=2.6e-07  Score=67.40  Aligned_cols=275  Identities=13%  Similarity=0.077  Sum_probs=171.1

Q ss_pred             CHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHH-HHCCHHHHHHHHH-CCCCCCC
Q ss_conf             3378875321001013847999569965899999999997335666773077620889-6418999999871-7888888
Q gi|254780804|r    5 ESHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALE-IQKNISTFWNEIN-STSLFSK   82 (352)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e-~~~d~~~l~~~~~-t~slF~~   82 (352)
                      -....++...++....+  .+|||+.---+...+..|.+....      ....+.+.. -..|...+++++. ...+++.
T Consensus        38 g~g~~Lrr~i~~~~~~S--~Il~GPPGtGKTTLA~iIA~~t~~------~F~~lsAv~sgvkdlr~ii~~A~~~~~~~g~  109 (726)
T PRK13341         38 GEGRLLRRAIKADRVGS--LILYGPPGVGKTTLARIIANHTRA------HFSSLNAVLAGVKDLRAEVDAAKERLERHGK  109 (726)
T ss_pred             CCCCHHHHHHHCCCCCE--EEEECCCCCCHHHHHHHHHHHHCC------CEEEEECCCCCHHHHHHHHHHHHHHHHHCCC
T ss_conf             89828999997699982--788897999999999999887488------6799856203779999999999999874599


Q ss_pred             CEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH-
Q ss_conf             23999847741-0457898898851056560799985265431135667654311210146644200135889887543-
Q gi|254780804|r   83 KKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLI-  160 (352)
Q Consensus        83 ~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~-  160 (352)
                      +.+++|+...- +|...+.|..++++   ++++++-+.--.+.-.+.+.+  ...+..+.+.+++..++...+...+.. 
T Consensus       110 ~tILFIDEIHRfNK~QQD~LLp~vE~---G~i~LIGATTENP~F~vn~AL--lSR~~vf~L~~L~~~dl~~il~rAl~d~  184 (726)
T PRK13341        110 RTILFIDEVHRFNKAQQDALLPWVEN---GTVTLIGATTENPYFEVNKAL--VSRSRLFRLKSLEDEDLHQLLKRALQDK  184 (726)
T ss_pred             CEEEEEECHHHCCHHHHHHHHHHHCC---CEEEEEEECCCCCCEEECHHH--HHHCEEEEECCCCHHHHHHHHHHHHHHH
T ss_conf             65999862542588789987888606---838999704789743642988--8323466743899999999999998767


Q ss_pred             ------CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC----CCCCCHHHHHHHHHC------CCCCC----HHH
Q ss_conf             ------0256675679999962001235568999999751034----443488888775310------12211----146
Q gi|254780804|r  161 ------GQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLE----DILITEQHVKDIICD------THVLY----IEE  220 (352)
Q Consensus       161 ------~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~----~~~It~~dI~~~v~~------~~~~~----if~  220 (352)
                            .++.++++|+++|+..++||.+.+-|-||-.......    ...|+.+.++..+..      ....+    +..
T Consensus       185 ~~g~~~~~i~i~~~al~~l~~~s~GDaR~aLN~LElav~~~~~~~~~~~~i~~~~~~~~~~~~~~~YDk~GD~HYd~iSA  264 (726)
T PRK13341        185 ERGYGDRNIDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGVIHINLAIAEESIQQRAVLYDKEGDAHFDTISA  264 (726)
T ss_pred             HCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCEEECHHHHHHHHHHHHHCCCCCCCHHHHHHHH
T ss_conf             43256678775989999999975973999999999999707457688344359999999856660568775178899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHC
Q ss_conf             78887641023699999998531100014589999999999999998302568989999860899997689999999864
Q gi|254780804|r  221 IINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRI  300 (352)
Q Consensus       221 L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~  300 (352)
                      |+.++-..|...|+.++.+++..|++|..|       +|+|+.+.. -+.|..++....          ......+++.+
T Consensus       265 fiKSiRGSDpDAALywLARMLeaGEDP~fI-------aRRLii~As-EDIGlAdP~Al~----------va~aa~~A~e~  326 (726)
T PRK13341        265 FIKSLRGSDPDAALYWLARMVEAGEDPRFI-------FRRMLIAAS-EDVGLADPQALV----------VVEACAAAFER  326 (726)
T ss_pred             HHHHHHCCCCCHHHHHHHHHHHCCCCHHHH-------HHHHHHHHH-HHCCCCCHHHHH----------HHHHHHHHHHH
T ss_conf             999865489678999999999759988999-------999999998-402366847999----------99999999997


Q ss_pred             CCHHHHHHHH
Q ss_conf             9989999999
Q gi|254780804|r  301 WNKNLVRETL  310 (352)
Q Consensus       301 ~s~~~l~~~l  310 (352)
                      .+.++-+-.+
T Consensus       327 iG~PE~ri~L  336 (726)
T PRK13341        327 VGLPEGLYPL  336 (726)
T ss_pred             HCCHHHHHHH
T ss_conf             4791779999


No 44 
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=99.07  E-value=1.6e-06  Score=62.29  Aligned_cols=287  Identities=10%  Similarity=0.022  Sum_probs=166.1

Q ss_pred             HHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC---C-----------------CCCEEEEEE--HHHHH
Q ss_conf             7887532100101384799956996589999999999733566---6-----------------773077620--88964
Q gi|254780804|r    7 HKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY---H-----------------DPFSLVVLN--ALEIQ   64 (352)
Q Consensus         7 ~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~---~-----------------~~~~~~~~~--~~e~~   64 (352)
                      +++++....+ .++| -|||.|++-.-+...+..+.+.+.-..   +                 .++-...-+  +..+.
T Consensus        12 ~~l~~~~~~~-rl~H-A~L~~G~~G~Gk~~la~~~a~~llC~~~~~~~~Cg~C~~C~l~~~~~HPD~~~i~pe~~~~~I~   89 (334)
T PRK07993         12 EKLVGSYQAG-RGHH-ALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLG   89 (334)
T ss_pred             HHHHHHHHCC-CCCE-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCCCCCCCC
T ss_conf             9999999859-8104-6754799998899999999999818999999999999789998668999847753422345599


Q ss_pred             -CCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf             -189999998717888888239998477410-457898898851056560799985265431135667654311210146
Q gi|254780804|r   65 -KNISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISC  142 (352)
Q Consensus        65 -~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~  142 (352)
                       +.+..+.+.+...|..|++|+|+|.++... .....+|-+.++.||+++++|+.+.....=   --.+  ...+..+.+
T Consensus        90 IdqIR~l~~~~~~~~~~g~~kV~iI~~Ae~mn~~AaNaLLKtLEEPp~~t~~iL~t~~~~~l---LpTI--~SRCq~~~~  164 (334)
T PRK07993         90 VDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPEKTWFFLACREPARL---LATL--RSRCRLHYL  164 (334)
T ss_pred             HHHHHHHHHHHHHCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEECCCHHHC---CCHH--HHHCCCCCC
T ss_conf             99999999998436656994799976677759999999998612799884999866985657---2388--752304158


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHH
Q ss_conf             64420013588988754302566756799999620012355689999997510344434888887753101221114678
Q gi|254780804|r  143 YPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEII  222 (352)
Q Consensus       143 ~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~  222 (352)
                      .+++...+..|+.+.     ...+++.+...+...+|.......-++      .+.    .+..+.++        ..+.
T Consensus       165 ~~~~~~~~~~wL~~~-----~~~~~~~~~~al~la~Gspl~A~~l~~------~~~----~~~r~~l~--------~~l~  221 (334)
T PRK07993        165 APPPEQYALTWLSRE-----VTMSQEALLAALRLSAGAPGAALALLQ------PER----WQQREALC--------QALA  221 (334)
T ss_pred             CCCCHHHHHHHHHHH-----CCCCHHHHHHHHHHCCCCHHHHHHHHC------CCH----HHHHHHHH--------HHHH
T ss_conf             997999999999873-----689889999999984998999999825------658----99999999--------9999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCC
Q ss_conf             88764102369999999853110001458999999999999999830256898999986089999768999999986499
Q gi|254780804|r  223 NATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWN  302 (352)
Q Consensus       223 dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s  302 (352)
                      +.+-.++.   +..+..+-.  ......+..+...++.+++.+     .|..  ..       ++.-..+.+...+++++
T Consensus       222 ~~l~~~d~---~~ll~~l~~--~~~~~~L~wl~~ll~D~l~~~-----~~~~--~l-------~n~D~~~~i~~la~~~s  282 (334)
T PRK07993        222 YSLPSGDW---YSLLPALNH--EQAPARLHWLATLLMDALKRQ-----HGAA--QV-------TNVDQPPLVAQLANHLS  282 (334)
T ss_pred             HHHCCCCH---HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH-----CCCC--CE-------ECHHHHHHHHHHHHCCC
T ss_conf             98703679---999999716--348999999999999999986-----0853--01-------48779999999985099


Q ss_pred             HHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHH
Q ss_conf             899999999999999995328-9998999999999999963
Q gi|254780804|r  303 KNLVRETLHKIDHRIHLARKK-KYLEKNIIFQTILYIAQTA  342 (352)
Q Consensus       303 ~~~l~~~l~~L~~~d~~~K~~-~~~~~~il~~~ll~l~~~a  342 (352)
                      ...+.+.+..+.++-..++.. +.+.+.+++++++++.+.-
T Consensus       283 ~~~L~~~~~~i~~~r~~L~~~~NlN~qLlLE~lll~~~~~l  323 (334)
T PRK07993        283 PARLQAILGDVCHCREQLLSVTGVNRELLLTDLLLRIEHYL  323 (334)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHC
T ss_conf             99999999999999999752689999999999999999973


No 45 
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=99.03  E-value=2.7e-06  Score=60.72  Aligned_cols=273  Identities=11%  Similarity=0.080  Sum_probs=160.3

Q ss_pred             HCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC---------------------CCCCEEEEE------EHH---HH-HCC
Q ss_conf             01384799956996589999999999733566---------------------677307762------088---96-418
Q gi|254780804|r   18 FLSHFVFIFYGSDKGLIFELINQFKKNISITY---------------------HDPFSLVVL------NAL---EI-QKN   66 (352)
Q Consensus        18 ~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~---------------------~~~~~~~~~------~~~---e~-~~d   66 (352)
                      .++|. |||+|++-.-+...+..+.+.+.=..                     +.++-...=      +|.   +| .+.
T Consensus        19 rl~HA-~L~~Gp~G~Gk~~~A~~~A~~llC~~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~~g~~~~~I~idq   97 (325)
T PRK08699         19 RRPNA-WLFVGKKGTGKTAFARFAAKALLCETPAPGCKPCGECMSCHLFGQGSHPDFYEITPLADEPENGRKLLQIKIDA   97 (325)
T ss_pred             CCCEE-EEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCHHH
T ss_conf             50117-97579999789999999999982899988899898888899986599999688513445300166556676999


Q ss_pred             HHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCC
Q ss_conf             9999998717888888239998477410-457898898851056560799985265431135667654311210146644
Q gi|254780804|r   67 ISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPD  145 (352)
Q Consensus        67 ~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~  145 (352)
                      +..+.+.+...|.-|++|+|+|+.+... ......|.+.++.||+++++|+.+.+...   +-..+  ...+..+++.++
T Consensus        98 iR~l~~~~~~~~~~~~~kV~ii~~ae~mn~~aaNaLLK~LEEPp~~~~fiL~t~~~~~---llpTI--~SRc~~~~~~~p  172 (325)
T PRK08699         98 VREIIDNVYLTSVRGGLRVILIHPAESMNVQAANSLLKVLEEPPPQVVFLLVSHAADK---VLPTI--KSRCRKMVLPAP  172 (325)
T ss_pred             HHHHHHHHCCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHH---CCCHH--HHCCCCCCCCCC
T ss_conf             9999999710865689469998577775899999999984178888489998798464---62339--864542108995


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             20013588988754302566756799999620012355689999997510344434888887753101221114678887
Q gi|254780804|r  146 NKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINAT  225 (352)
Q Consensus       146 ~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai  225 (352)
                      +..++..|+.+.    |+  + ++...|+. .|+-..           +..+ .     ++....        -++++.+
T Consensus       173 ~~~~~~~~L~~~----gv--~-~~~~~La~-~~gapl-----------~~~~-~-----~~~~~r--------~~ll~~L  219 (325)
T PRK08699        173 SHEEALAYLRER----GV--A-EPEERLAF-HSGAPL-----------FDEE-D-----ELRALR--------AKLLDIL  219 (325)
T ss_pred             CHHHHHHHHHHC----CC--C-CHHHHHHH-CCCCCH-----------HHHC-C-----HHHHHH--------HHHHHHH
T ss_conf             999999999974----89--7-67899976-599811-----------2317-4-----369999--------9999997


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHH
Q ss_conf             64102369999999853110001458999999999999999830256898999986089999768999999986499899
Q gi|254780804|r  226 IQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNL  305 (352)
Q Consensus       226 ~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~  305 (352)
                      ..++....+.....+..+..+...++..+.+.++.|+...    .++.          +-+|+..++.+...+++++..+
T Consensus       220 ~~~~~~~~l~~a~~~~k~~~~l~~~l~wlq~wl~DL~~~~----~~~~----------~~y~~d~~~~L~~lA~~~~~~~  285 (325)
T PRK08699        220 AEPRLLKILDYAALFDKEKLPLAVFVGWMQKWLVDLGLCL----QHMK----------PVYYPAYEDRLLQTASGFRPRN  285 (325)
T ss_pred             HCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH----HCCC----------CCCCHHHHHHHHHHHHHCCHHH
T ss_conf             2644055999999987565848999999999999999998----2698----------5438768999999987089999


Q ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHC
Q ss_conf             999999999999995328999899999999999996310
Q gi|254780804|r  306 VRETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTACK  344 (352)
Q Consensus       306 l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~~  344 (352)
                      +-..+..+.++-.... .+.+..-.++.+++.-.+..+-
T Consensus       286 L~~~~~~l~~~~r~~~-~nlN~~L~lE~LLl~y~~l~~~  323 (325)
T PRK08699        286 VFAAEDMLKQLAPYGF-HTLNVKMQIEHLLINYLELKKE  323 (325)
T ss_pred             HHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHHHHHH
T ss_conf             9999999999998545-9987899999999999988751


No 46 
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=98.95  E-value=4.7e-06  Score=59.10  Aligned_cols=269  Identities=11%  Similarity=0.119  Sum_probs=159.3

Q ss_pred             HCCCCEEEEECCCHHHHHHHHHHHHHHHCCC----C-----------------CCCCEEEEEE-----------------
Q ss_conf             0138479995699658999999999973356----6-----------------6773077620-----------------
Q gi|254780804|r   18 FLSHFVFIFYGSDKGLIFELINQFKKNISIT----Y-----------------HDPFSLVVLN-----------------   59 (352)
Q Consensus        18 ~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~----~-----------------~~~~~~~~~~-----------------   59 (352)
                      .++|. |||+|++---+...+..+.+.+.=+    .                 +.++-.+.=+                 
T Consensus        19 rl~HA-~Lf~Gp~G~Gk~~lA~~~A~~llC~~~~~~~~~Cg~C~sC~~~~~~~HPD~~~i~Pe~~~~~~~~~~~~~~~~~   97 (342)
T PRK06964         19 RWPHA-LLLHGQAGIGKLAFAQHLAQGLLCETPQPNGEPCGTCAACTWFAQGNHPDYRIVRPEALAAEAPGAADDAKAAD   97 (342)
T ss_pred             CHHEE-EEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEECCCHHCCCCCCCCCHHHHHH
T ss_conf             71305-76579998679999999999983899998889786777788886279997455340021022333210010111


Q ss_pred             -----------HHHHH-CCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHH
Q ss_conf             -----------88964-189999998717888888239998477410-45789889885105656079998526543113
Q gi|254780804|r   60 -----------ALEIQ-KNISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNT  126 (352)
Q Consensus        60 -----------~~e~~-~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~k  126 (352)
                                 +++|. +.+..+.+.+.-.|..|++|+|+|.++... ......|.+.++.||+++++|+.+.....   
T Consensus        98 ~~~~~~~~~~~~~~I~idqiR~l~~~l~~~~~~g~~kVviI~~Ae~mn~~aaNalLK~LEEPp~~~~~iL~~~~~~~---  174 (342)
T PRK06964         98 ADEGGKKTRAPSKEIKIEQVRALLDFCGVGSHRGGARVVVLYPAEALNVAAANALLKTLEEPPPGVVFLLVSARIDR---  174 (342)
T ss_pred             HHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHH---
T ss_conf             22210123565564549999999999700754588449998277873899999999972379878489998699254---


Q ss_pred             HHHHHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHH
Q ss_conf             5667654-311210146644200135889887543025667567999996200123556899999975103444348888
Q gi|254780804|r  127 LRKIAEK-FTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQH  205 (352)
Q Consensus       127 l~k~~e~-~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~d  205 (352)
                         +..+ ...+..+.+.+++...+..|+.+    .|+.   ++...+. ..||.....   +   .+...+.    .+.
T Consensus       175 ---llpTI~SRcq~~~~~~~~~~~~~~~L~~----~~v~---~a~~lla-~a~G~p~~A---l---~l~~~~~----~~~  233 (342)
T PRK06964        175 ---LLPTILSRCRQWPMTVPAPEAAAAWLAA----QGVA---DANALLA-EAGGAPLAA---L---ALASDEN----RPL  233 (342)
T ss_pred             ---CCHHHHHCCEEECCCCCCHHHHHHHHHH----CCCC---CHHHHHH-HCCCCHHHH---H---HHHCCCH----HHH
T ss_conf             ---8368876764302899599999999987----3986---3999998-809998999---9---8716735----999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCC
Q ss_conf             87753101221114678887641023699999998531100014589999999999999998302568989999860899
Q gi|254780804|r  206 VKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKN  285 (352)
Q Consensus       206 I~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p  285 (352)
                      ...            +++.+..+.....+...+.+  +..+.-.++..+.+.++.++.++.    +|.          +-
T Consensus       234 ~~~------------~l~~L~~~~~~~~~~~ae~~--~k~~~~~~l~~l~~w~~DlL~~~~----~~~----------~~  285 (342)
T PRK06964        234 RDW------------TLGQLAAGAACDAFACGETL--QKLPVPAVLGWLQRWLYDLLAQRL----AGA----------PR  285 (342)
T ss_pred             HHH------------HHHHHHCCCCCCHHHHHHHH--HCCCHHHHHHHHHHHHHHHHHHHH----CCC----------CC
T ss_conf             999------------99998643325799999998--447899999999999999999982----598----------11


Q ss_pred             CCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Q ss_conf             9976899999998649989999999999999999532899989999999999999
Q gi|254780804|r  286 IIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQ  340 (352)
Q Consensus       286 ~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~  340 (352)
                      +|+.....+.+.+++++...+.+++..+.++-..+.. +.+...+++.++++..+
T Consensus       286 ~~~~~~~~l~~lA~~~~~~~L~~~~~~l~~~r~~l~~-nvN~~L~lE~LlL~~~e  339 (342)
T PRK06964        286 YFPAQRAALARCAAAADANAFARFAKAVTRQRAVENH-PLAARLVFEELFLGYRE  339 (342)
T ss_pred             CCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHH
T ss_conf             2677999999988508999999999999999998629-98779999999999999


No 47 
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=98.94  E-value=6.1e-06  Score=58.38  Aligned_cols=294  Identities=12%  Similarity=0.066  Sum_probs=166.4

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCC----------------------------CCEEEEE--
Q ss_conf             8753210010138479995699658999999999973356667----------------------------7307762--
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHD----------------------------PFSLVVL--   58 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~----------------------------~~~~~~~--   58 (352)
                      .+...-.+-.++| -|||+|++---+...+..+.+.+......                            .-.+..+  
T Consensus        28 ~L~~a~~~grl~H-A~Lf~Gp~GiGK~tlA~~~A~~ll~~~~~~~~~~~~~~~~l~~~~~~p~~r~i~~~~hpdl~~i~r  106 (363)
T PRK07471         28 ALLDAYRSGRLHH-AWLIGGPQGIGKATLAYRMARFLLATPPPGGDAVFPPPASLAVDPDHPVARRIAAGAHGGLLTLER  106 (363)
T ss_pred             HHHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHCCCCCCCHHHHHHCCCCCCEEEEEC
T ss_conf             9999998599764-587679998188999999999985799977777678705312587772899995269998466762


Q ss_pred             --EHHH------H-HCCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHH
Q ss_conf             --0889------6-4189999998717888888239998477410-4578988988510565607999852654311356
Q gi|254780804|r   59 --NALE------I-QKNISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLR  128 (352)
Q Consensus        59 --~~~e------~-~~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~  128 (352)
                        +.+.      + .++...+...+...|.-|++|++||..+... ......|.+.++.||+++++|+.+....+     
T Consensus       107 ~~d~k~~~~~~~I~Vd~iR~l~~~~~~~p~~g~~kV~IId~ad~mn~~aaNALLK~LEEPP~~t~fiLit~~~~~-----  181 (363)
T PRK07471        107 SWNEKGKRLRTVITVDEVRETIGFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLLLLVSHAPAR-----  181 (363)
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEEECHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHH-----
T ss_conf             001133321244539999999999724852489669998687873889999999972158988389986399777-----


Q ss_pred             HHHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             67654-31121014664420013588988754302566756799999620012355689999997510344434888887
Q gi|254780804|r  129 KIAEK-FTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVK  207 (352)
Q Consensus       129 k~~e~-~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~  207 (352)
                       +... ...+..+.|.|++..++..++.+   ..+...+++.+..++...+|+.....      .++..+ +.--.+++.
T Consensus       182 -llpTI~SRCq~~~~~~l~~~~~~~~L~~---~~~~~~~~~~~~~la~~a~Gs~~~Al------~l~~~~-~~~l~~~~~  250 (363)
T PRK07471        182 -LLPTIRSRCRKLRLRPLAPEDVIAALAE---AGGPALDDAELAALAALAEGSVGRAL------RLAGGD-GLALYQRTT  250 (363)
T ss_pred             -CHHHHHHHCCCCCCCCCCHHHHHHHHHH---HCCCCCCHHHHHHHHHHCCCCHHHHH------HHHCCC-HHHHHHHHH
T ss_conf             -7799997352425899599999999998---43899998999999997589999999------874798-599999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHH-HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCC
Q ss_conf             753101221114678887641023699999998531100014-5899999999999999983025689899998608999
Q gi|254780804|r  208 DIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHA-LLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNI  286 (352)
Q Consensus       208 ~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~-il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~  286 (352)
                      .++.....            .|...+..+-+.+-..+.+... ++..+.+.++.+.+...    .+.+.        +.+
T Consensus       251 ~ll~~~~~------------~d~~~~~~lad~~a~~~~~~~~~~l~l~~~~l~~~~r~~~----~~~~~--------~~~  306 (363)
T PRK07471        251 ALLDTLPR------------LDRRALHALADAAAGGDRAAFALFLDLLDRWLARLARAGA----RNAGL--------PEA  306 (363)
T ss_pred             HHHHHCCC------------CCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHC----CCCCC--------CCC
T ss_conf             99974767------------8999999999998168779999999999999999998752----27881--------001


Q ss_pred             CHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             976899999998649989999999999999999532899989999999999999631
Q gi|254780804|r  287 IPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQTAC  343 (352)
Q Consensus       287 ~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~  343 (352)
                      .+.+...+.+-+..-+...+.++...+.+.......-..+.+.++..++..+..+|+
T Consensus       307 ~~~E~~~~~rl~~~~~~~~~~~~~~~l~~~~~~~~~~NLD~k~~~ld~~~~l~~~a~  363 (363)
T PRK07471        307 VPGEAALLARLAPDARLRRWAEVWEKIGRRARRTEAVNLDRKALVLDVFGLLAEAAR  363 (363)
T ss_pred             CCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHC
T ss_conf             731799998608863089999999999999999986189889999999999999729


No 48 
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=98.78  E-value=1.6e-06  Score=62.29  Aligned_cols=235  Identities=13%  Similarity=0.133  Sum_probs=151.7

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHH
Q ss_conf             9995699658999999999973356667730776208896418999999871788888823999847741-045789889
Q gi|254780804|r   24 FIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST-EKKVLDCLE  102 (352)
Q Consensus        24 yLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~  102 (352)
                      -+|||+.---+...++.|.+..... ...++-+...-    .|...+++++......|-+-+++|+...- .|...+.+.
T Consensus        51 mIl~GPPG~GKTTlA~liA~~~~~~-f~~~sAv~~gv----kdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lL  125 (436)
T COG2256          51 MILWGPPGTGKTTLARLIAGTTNAA-FEALSAVTSGV----KDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDALL  125 (436)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-EEEECCCCCCH----HHHHHHHHHHHHHHHCCCCEEEEEEHHHHCCHHHHHHHH
T ss_conf             5777899988889999998761776-69951523467----999999999999872588349987225333744565510


Q ss_pred             HHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH--HHHHCCCC-----CCHHHHHHHHH
Q ss_conf             885105656079998526543113566765431121014664420013588988--75430256-----67567999996
Q gi|254780804|r  103 EIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEE--SLLIGQKS-----ISKEAKQILLA  175 (352)
Q Consensus       103 ~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~--~~~~~g~~-----i~~~a~~~L~~  175 (352)
                      .++++   ++++++-+.--.+.-.+...+  -..+.+..+.|++..++...+..  .....|+.     ++++|.++|+.
T Consensus       126 p~vE~---G~iilIGATTENPsF~ln~AL--lSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~  200 (436)
T COG2256         126 PHVEN---GTIILIGATTENPSFELNPAL--LSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVR  200 (436)
T ss_pred             HHHCC---CEEEEEECCCCCCCEEECHHH--HHHHHEEEEECCCHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHH
T ss_conf             33248---868999626789871403888--6110415651699899999999998654137776556688899999998


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCC------CCHHHHH----HHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             2001235568999999751034443488888775310122------1114678----88764102369999999853110
Q gi|254780804|r  176 NLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHV------LYIEEII----NATIQGKIYNAIMLADFFLASKM  245 (352)
Q Consensus       176 ~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~------~~if~L~----dai~~~~~~~a~~~l~~l~~~g~  245 (352)
                      .++||.+.+-|-||-....+.+.+.++.++++.++.....      ...++++    .++-..|...|+.++.+++..|+
T Consensus       201 ~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~dAALyylaRmi~~Ge  280 (436)
T COG2256         201 LSNGDARRALNLLELAALSAEPDEVLILELLEEILQRRSARFDKDGDAHYDLISALHKSVRGSDPDAALYYLARMIEAGE  280 (436)
T ss_pred             HCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCC
T ss_conf             62861999988999999862777524799999998655205677763478999999986126883789999999996688


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             0014589999999999999998302568989
Q gi|254780804|r  246 PSHALLHGFLQKFQLLEKIHIIKECSNISFE  276 (352)
Q Consensus       246 ~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~  276 (352)
                      +|..|-       |+|..+.. -+.+..++.
T Consensus       281 Dp~yiA-------RRlv~~As-EDIGlAdP~  303 (436)
T COG2256         281 DPLYIA-------RRLVRIAS-EDIGLADPN  303 (436)
T ss_pred             CHHHHH-------HHHHHHHH-HHCCCCCHH
T ss_conf             789999-------99999987-422578836


No 49 
>PRK04132 replication factor C small subunit; Provisional
Probab=98.77  E-value=2.7e-07  Score=67.30  Aligned_cols=198  Identities=15%  Similarity=0.047  Sum_probs=143.7

Q ss_pred             HHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             898898851056560799985265431135667654-3112101466442001358898875430256675679999962
Q gi|254780804|r   98 LDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEK-FTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLAN  176 (352)
Q Consensus        98 ~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~-~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~  176 (352)
                      .+++......-..++.+++..+..   |   |+++. ...|+.+.|.|+...++..-++..++.+|+++++++++.|+..
T Consensus       662 ~~~~~r~~~~~~~~~~~~~SCNYs---S---KIIePIQSRCavFRF~PL~~e~v~~RL~~Ia~~Egv~itedGleAI~~~  735 (863)
T PRK04132        662 YDITCHNDHSFIANGFVSHNCNYS---S---KIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYV  735 (863)
T ss_pred             HHHHHHHHHHHHCCCEEEEECCCC---C---CCCCHHHCCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             999987787642056179866760---4---0741665562478836899999999999999974997677899999997


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-HHHCCCHHHHHHHH
Q ss_conf             00123556899999975103444348888877531012211146788876410236999999985-31100014589999
Q gi|254780804|r  177 LGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFL-ASKMPSHALLHGFL  255 (352)
Q Consensus       177 ~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~-~~g~~~~~il~~L~  255 (352)
                      .+|||+.+.|-|+--+  ++. +.||.+.|-.+++......+-++++.+++|+...|...+..++ ..|.++.-|+.++.
T Consensus       736 aeGDMRkAIN~LQsaa--~~~-~~Vt~d~Vy~v~~~p~P~~I~~~l~~al~g~f~~A~~~L~~ll~~~GlS~~DII~~i~  812 (863)
T PRK04132        736 AEGDMRRAINVLQAAA--ALD-TKITDENVFKVASRARPEDIREMMLLALKGNFLKAREKLREILLKQGLSGEDVLVQMH  812 (863)
T ss_pred             CCCCHHHHHHHHHHHH--HCC-CCCCHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             5674899999999998--616-9878889999708999899999999997299899999999999966969899999999


Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf             99999999999830256898999986089999768999999986499899999999999999995328999899999999
Q gi|254780804|r  256 QKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTI  335 (352)
Q Consensus       256 ~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~l  335 (352)
                      +....+            +                          ++...-..++..+.++|..+-. |..+..-+.-++
T Consensus       813 r~v~~l------------~--------------------------ipe~~kv~li~~ige~e~Rl~e-Ga~e~IQL~ALl  853 (863)
T PRK04132        813 REVFNL------------P--------------------------IDEPKKVYLADKIGEYNFRLVE-GANEMIQLEALL  853 (863)
T ss_pred             HHHHHC------------C--------------------------CCHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_conf             999617------------9--------------------------9878999999999766703314-888699999999


Q ss_pred             HHHHHHHH
Q ss_conf             99999631
Q gi|254780804|r  336 LYIAQTAC  343 (352)
Q Consensus       336 l~l~~~a~  343 (352)
                      -.++...+
T Consensus       854 A~f~l~g~  861 (863)
T PRK04132        854 AQFTLMGK  861 (863)
T ss_pred             HHHHHHCC
T ss_conf             99997357


No 50 
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=98.76  E-value=2.3e-05  Score=54.52  Aligned_cols=212  Identities=14%  Similarity=0.091  Sum_probs=130.8

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC------------------------CCCEEEE----EEH
Q ss_conf             875321001013847999569965899999999997335666------------------------7730776----208
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH------------------------DPFSLVV----LNA   60 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~------------------------~~~~~~~----~~~   60 (352)
                      +.+..+.+ .++| -|||+|+.---+...+..+.+.+.....                        ..-++..    +|.
T Consensus        35 L~~a~~~g-Rl~H-A~Lf~GP~GiGKaTlA~~~A~~Ll~~~~~~~~~~~~~~pd~~~~~~r~i~~g~hpdl~~i~r~~d~  112 (352)
T PRK09112         35 LAQAYREG-RLHH-ALLFEGPEGIGKATLAFHLANHILSHPDPNEAPETLADPDPASPLWRQIAQGAHPNLLHLTRPFDE  112 (352)
T ss_pred             HHHHHHCC-CCCC-EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCH
T ss_conf             99999849-9652-465358998089999999999986699866686556788878778999974899995655343220


Q ss_pred             HH------H-HCCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHH
Q ss_conf             89------6-4189999998717888888239998477410-45789889885105656079998526543113566765
Q gi|254780804|r   61 LE------I-QKNISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAE  132 (352)
Q Consensus        61 ~e------~-~~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e  132 (352)
                      .+      + .++...+.+.+...|.-|+.|++||+.+... ......|.+.++.||+++++|+.+....+      +..
T Consensus       113 k~~~~~~~I~vd~iR~l~~~~~~~~~~~~~kv~Iid~ad~m~~~aaNALLK~LEEPp~~~~fiLit~~~~~------ll~  186 (352)
T PRK09112        113 KTGKFKTAITVDEIRRVTHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGR------LLP  186 (352)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCHHH------CHH
T ss_conf             21454335777999999998454886688069998187874699999999985348987489988699777------768


Q ss_pred             H-HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             4-311210146644200135889887543025667567999996200123556899999975103444348888877531
Q gi|254780804|r  133 K-FTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIIC  211 (352)
Q Consensus       133 ~-~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~  211 (352)
                      . ...+..+.|.|++..++...++......++. +++++..++...+|+.+..      |.++.++.-.| ..++..++.
T Consensus       187 TI~SRCq~~~f~pL~~~di~~~L~~i~~~~~~~-~~~~~~~l~~~a~GS~~~A------l~L~~~~gl~i-~~~~~~ll~  258 (352)
T PRK09112        187 TIRSRCQPISLKPLDDDELKKALSHLGSKQGIS-AGEETEALLQRSEGSVRKA------LLLLNYGGLEI-IDTVDQLLA  258 (352)
T ss_pred             HHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHCCCHHHH------HHHHCCCHHHH-HHHHHHHHH
T ss_conf             999743321488939899999999875126899-8799999998708998899------98744877999-999999980


Q ss_pred             CCCCC---CHHHHHHHHHHHHHHHHHHHH
Q ss_conf             01221---114678887641023699999
Q gi|254780804|r  212 DTHVL---YIEEIINATIQGKIYNAIMLA  237 (352)
Q Consensus       212 ~~~~~---~if~L~dai~~~~~~~a~~~l  237 (352)
                      . ...   ..-.|.|++..++....+..+
T Consensus       259 ~-p~~d~~~~~~la~~~~~~~~~~~~~~~  286 (352)
T PRK09112        259 G-SGFDLPKAHALAGALSGRESEVQFDLF  286 (352)
T ss_pred             C-CCCCHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             8-999989999999998477747899999


No 51 
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=98.73  E-value=7.8e-06  Score=57.67  Aligned_cols=262  Identities=13%  Similarity=0.096  Sum_probs=140.8

Q ss_pred             HHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC--------------CCCEEEE---------EEHHHH
Q ss_conf             78875321001013847999569965899999999997335666--------------7730776---------208896
Q gi|254780804|r    7 HKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH--------------DPFSLVV---------LNALEI   63 (352)
Q Consensus         7 ~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~--------------~~~~~~~---------~~~~e~   63 (352)
                      .+.++..-++...+| -|||+|++..-+...+..+.+.+.....              .++-.+.         +...+.
T Consensus        13 ~~~L~~ai~~~rl~h-AyLF~Gp~G~GK~~~A~~fa~~Ll~~~~~~~~~~~ri~~~nHPDl~~i~P~~~~~g~~~~~~~~   91 (314)
T PRK07399         13 IELLTAAIEQNRIAP-AYLFAGPEGVGRKLAALRFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQGKLITASEA   91 (314)
T ss_pred             HHHHHHHHHCCCCCC-EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCEEEEECCCCCCCCCCCHHHH
T ss_conf             999999998599674-4877899983299999999999857899997665587518999778860562003454557789


Q ss_pred             --------------HCCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHH
Q ss_conf             --------------4189999998717888888239998477410-4578988988510565607999852654311356
Q gi|254780804|r   64 --------------QKNISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLR  128 (352)
Q Consensus        64 --------------~~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~  128 (352)
                                    .+++..+...+...|+-|++|+|||.++... .....+|...++.|+.. ++|+.+.+..      
T Consensus        92 ~~~~~~~~~~~~I~idqIR~l~~~l~~~p~~~~~kVvII~~ae~m~~~AaNaLLKtLEEP~~~-~fILit~~~~------  164 (314)
T PRK07399         92 EEAGLKRKSPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNG-TLILIAPSPE------  164 (314)
T ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCCCCC-EEEEEECCHH------
T ss_conf             876530268777879999999999731885688479998897871999999999861478785-6999979936------


Q ss_pred             HHHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             67654-31121014664420013588988754302566756799999620012355689999997510344434888887
Q gi|254780804|r  129 KIAEK-FTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVK  207 (352)
Q Consensus       129 k~~e~-~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~  207 (352)
                      +...+ ...+..++|.+.+..++.+++++.....+..++.+++-.+   .+|..+.+...++.+...       ..+ +.
T Consensus       165 ~lLpTI~SRCQ~i~F~~l~~~~i~~~L~~~~~~~~~~~~~~~l~~~---A~GspG~a~~~~~~~~~i-------~~e-l~  233 (314)
T PRK07399        165 SLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDNINEILDHPELLAL---AQGSPGAAIANIEQLQSI-------PPE-LL  233 (314)
T ss_pred             HCCHHHHCCCEEEECCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHH---HCCCHHHHHHHHHHHHHC-------CHH-HH
T ss_conf             4914664187563389989999999999716643310278999988---179979999999998748-------699-99


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCC
Q ss_conf             75310122111467888764102369999999853110001458999999999999999830256898999986089999
Q gi|254780804|r  208 DIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNII  287 (352)
Q Consensus       208 ~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~  287 (352)
                      ..+....             .+...++.+....-..    .-+       ..+|+.                        
T Consensus       234 ~~l~~~~-------------~~~~~~l~lak~i~~~----Ld~-------~~qlwl------------------------  265 (314)
T PRK07399        234 QKLEQPP-------------KNPLEALELAKDISEE----LDI-------EQQLWL------------------------  265 (314)
T ss_pred             HHHHCCC-------------CCHHHHHHHHHHHHHH----HHH-------HHHHHH------------------------
T ss_conf             9986245-------------6899999998861266----788-------999999------------------------


Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             768999999986499899999999999999995328999899999999999996
Q gi|254780804|r  288 PMKRNILQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEKNIIFQTILYIAQT  341 (352)
Q Consensus       288 ~~~k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~  341 (352)
                         .+.+  |...|...+-..++..|-++..+++.+ ..+...++-++|.++..
T Consensus       266 ---~~~l--q~~~w~~~~~~~~~~~le~~r~~L~~~-vqprL~~Ev~ll~l~~~  313 (314)
T PRK07399        266 ---IDYL--QQHYWQKTKNSQLLKKLEKLRKQLLSY-VQPRLAWEVTLLELSQE  313 (314)
T ss_pred             ---HHHH--HHHHHHHCCCHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHCC
T ss_conf             ---9999--999998600379999999999999852-88089999999999734


No 52 
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=98.71  E-value=1.2e-05  Score=56.36  Aligned_cols=260  Identities=11%  Similarity=0.074  Sum_probs=138.5

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCC----------CEEEEE--EHHHH---HCCHHHH
Q ss_conf             37887532100101384799956996589999999999733566677----------307762--08896---4189999
Q gi|254780804|r    6 SHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDP----------FSLVVL--NALEI---QKNISTF   70 (352)
Q Consensus         6 ~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~----------~~~~~~--~~~e~---~~d~~~l   70 (352)
                      +.|-+.+.-++..++|. |||+|++.--+...+..+.+.+.-+...+          -.+..+  ++..-   .+.+..+
T Consensus         5 ~We~L~~~i~~~Rl~HA-yLf~Gp~G~GK~~~A~~~A~~LLc~~~p~~~~~i~~~~HPD~~~i~pe~k~~~~~Id~iR~l   83 (290)
T PRK05917          5 AWEALLQRVRDQKVPSA-ILLHGQDLSNLSQYAYELASLILLESSPEAQYKISQKIHPDIHEFFPEGKGRLHSIETPRAI   83 (290)
T ss_pred             HHHHHHHHHHCCCCCEE-EEEECCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCEEEECCCCCCCCCCHHHHHHH
T ss_conf             99999999983996606-87689998659999999999985789961688987468998599615777887867899999


Q ss_pred             HHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             99871788888823999847741-04578988988510565607999852654311356676543112101466442001
Q gi|254780804|r   71 WNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIH  149 (352)
Q Consensus        71 ~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~  149 (352)
                      ...+...|.-|++|+++|.++.. ......+|...++.||+++++|+.+.+...=   --.+  ...+..+.+..     
T Consensus        84 ~~~i~~~p~~g~~KV~IId~Ad~Mn~~AaNALLKtLEEPP~~tvfILit~~~~~l---LpTI--~SRCQ~I~i~~-----  153 (290)
T PRK05917         84 KKQIWIHPYEANYKIYIIHEADRMTLDAISAFLKVLEDPPKHSVIILTSAKPQRL---PPTI--RSRSLSIHIPG-----  153 (290)
T ss_pred             HHHHCCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHHC---CHHH--HHCCCEEECCC-----
T ss_conf             9996418646882699975677638999999999734798785999986992548---2377--63351167776-----


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             35889887543025667567999996200123556899999975103444348888877531012211146788876410
Q gi|254780804|r  150 LMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGK  229 (352)
Q Consensus       150 l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~  229 (352)
                                ...--++.+.+.+++...+|.+                    ..-++...+..+.+.     .+.++   
T Consensus       154 ----------~e~~~i~~e~~~~l~~~a~g~~--------------------~~~~~~~~~k~~~d~-----~~~~~---  195 (290)
T PRK05917        154 ----------EEKTLPSKEDIAYLIRYAQGKE--------------------SVTEVGQIVKGSADT-----DKQVL---  195 (290)
T ss_pred             ----------CCCCCCCHHHHHHHHHHHCCCH--------------------HHHHHHHHHCCHHHH-----HHHHH---
T ss_conf             ----------2013478899999999846973--------------------888999883012776-----67877---


Q ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             23699999998531100014589999999999999998302568989999860899997689999999864998999999
Q gi|254780804|r  230 IYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVRET  309 (352)
Q Consensus       230 ~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~~~  309 (352)
                                    .+..-.++..+..+||..+..+.-.     +.. .+      .++.....+ .+.   +.-.+.++
T Consensus       196 --------------r~k~~~~l~~ll~~~Rd~~~~~~~~-----~~s-~l------~~~~~~~~i-~~~---~~~~l~~v  245 (290)
T PRK05917        196 --------------RDKTKRMLEVLLQLFRDRFTLALKV-----PAS-AL------AYPDYLKEI-LTL---PVLPLEKV  245 (290)
T ss_pred             --------------HHHHHHHHHHHHHHHHHHHHHHCCC-----CHH-HH------CCCHHHHHH-HHC---CCCCHHHH
T ss_conf             --------------8999999999999999999986169-----735-52------280689999-866---35679999


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf             999999999953289998999999999999963102
Q gi|254780804|r  310 LHKIDHRIHLARKKKYLEKNIIFQTILYIAQTACKN  345 (352)
Q Consensus       310 l~~L~~~d~~~K~~~~~~~~il~~~ll~l~~~a~~~  345 (352)
                      +..+-++-..+.. +......++.+.+.+...-.|.
T Consensus       246 ~~~i~~a~~~l~~-~~~~~~~~~~~~l~~~~l~~~~  280 (290)
T PRK05917        246 LSIIERAVQALDN-SSSATSCLEWVALQLVSLQNRQ  280 (290)
T ss_pred             HHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHHHH
T ss_conf             9999999998503-6766899999999999876377


No 53 
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=98.59  E-value=7.8e-05  Score=51.03  Aligned_cols=165  Identities=10%  Similarity=0.096  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCC-----------------CCEEEEEEHH----H----H
Q ss_conf             8753210010138479995699658999999999973356667-----------------7307762088----9----6
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHD-----------------PFSLVVLNAL----E----I   63 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~-----------------~~~~~~~~~~----e----~   63 (352)
                      +.+-++.| .++| -|||+|++-.-+...+..+.+.+.....+                 ++.++.....    .    +
T Consensus        16 L~~~i~~~-rl~H-A~Lf~Gp~G~GK~~~A~~~A~~llc~~~~~~~~~~~~~~i~~g~HPD~~~i~~~~~~~~~k~k~~I   93 (319)
T PRK08769         16 TVAALDAG-RLGH-GLLICGPEGLGKRAVALALAEHVLASGPDPALAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEI   93 (319)
T ss_pred             HHHHHHCC-CCCC-EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCC
T ss_conf             99999769-9420-687589998789999999999983799797654338899966899896877534444543112348


Q ss_pred             -HCCHHHHHHHHHCCCCCCCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCC
Q ss_conf             -418999999871788888823999847741-045789889885105656079998526543113566765431121014
Q gi|254780804|r   64 -QKNISTFWNEINSTSLFSKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAIS  141 (352)
Q Consensus        64 -~~d~~~l~~~~~t~slF~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~  141 (352)
                       .+++..+.+.+...|.-|..|++||+++.. .......|.+.++.||+++++|+.+.+.+.   +-..+  ...+..++
T Consensus        94 ~IdqiR~l~~~~~~~p~~g~~KV~IId~Ad~mn~~AaNalLK~LEEPp~~~~~iL~~~~~~~---ll~TI--~SRCq~~~  168 (319)
T PRK08769         94 VIEQVREISQKLALTPQYGIAQVVIVDPADAINRSACNALLKTLEEPSPGRYLWLISAQPAR---LPATI--RSRCQRLE  168 (319)
T ss_pred             CHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCCCCCEEEEEEECCHHH---CCHHH--HHCCEEEC
T ss_conf             69999999999613720279569998066752899999999982279988489998699365---82477--64850111


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             664420013588988754302566756799999620012355689
Q gi|254780804|r  142 CYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRN  186 (352)
Q Consensus       142 ~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~  186 (352)
                      +.++...+...|+...    |  +++..+...+...++......+
T Consensus       169 ~~~p~~~~~~~~L~~~----g--~~~~~a~~~l~~a~g~p~~A~~  207 (319)
T PRK08769        169 FKLPPAHEALAWLLSQ----G--VSERAAQEALDAARGHPGLAAQ  207 (319)
T ss_pred             CCCCCHHHHHHHHHHC----C--CCHHHHHHHHHHHCCCHHHHHH
T ss_conf             8996999999999975----9--9918999999982799689999


No 54 
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=98.57  E-value=1.2e-05  Score=56.42  Aligned_cols=180  Identities=12%  Similarity=0.104  Sum_probs=120.5

Q ss_pred             EEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC---HHHHHH
Q ss_conf             79995699658999999999973356667730776208896418999999871788888823999847741---045789
Q gi|254780804|r   23 VFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST---EKKVLD   99 (352)
Q Consensus        23 iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~---~k~~~~   99 (352)
                      ..++||+..--+....+.+...+....   .+...++..++........+.      +....+++|++...   .+...+
T Consensus        40 ~l~i~G~~GsGKTHLl~a~~~~~~~~~---~~~~yl~~~~~~~~~~~~l~~------l~~~d~l~iDDi~~i~~~~~~e~  110 (226)
T TIGR03420        40 FLYLWGESGSGKSHLLQAACAAAEERG---KSAIYLPLAELAQADPEVLEG------LEQADLVCLDDVEAIAGQPEWQE  110 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCCC---CCEEEECHHHHHHHHHHHHHH------CCCCCEEEEECHHHHCCCHHHHH
T ss_conf             699989999988999999999986269---957995299987753999972------74489999966333437837899


Q ss_pred             HHHHHHHCC-CCCEEEEEEECCCCCCH--HHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             889885105-65607999852654311--356676543112101466442001358898875430256675679999962
Q gi|254780804|r  100 CLEEIIIKN-ICNHIIIIKSNEIKKNN--TLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLAN  176 (352)
Q Consensus       100 ~l~~~~~~~-~~~~~li~~a~~l~k~~--kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~  176 (352)
                      .+-.++..- ..+..+++.+..-...-  .+..+...-..+..+...+++...+...+..++...|+.++++++++|+.+
T Consensus       111 ~lF~l~N~~~~~~~~ilits~~~p~~l~~~l~dL~SRl~~~~~~~I~~pdd~~~~~iL~k~~~~r~i~i~~~vi~yl~~r  190 (226)
T TIGR03420       111 ALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRH  190 (226)
T ss_pred             HHHHHHHHHHHHCCEEEEECCCCHHHCCCCHHHHHHHHHCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             99999999986528289867888232032017799999688568527999999999999999985998899999999986


Q ss_pred             HHHHHHHHHHHHHHHHHHCC-CCCCCCHHHHHHHHH
Q ss_conf             00123556899999975103-444348888877531
Q gi|254780804|r  177 LGGDRIASRNELQKLSSYCL-EDILITEQHVKDIIC  211 (352)
Q Consensus       177 ~g~d~~~l~~EleKL~ly~~-~~~~It~~dI~~~v~  211 (352)
                      +..|...+..-+++|--++. .+++||...|.+++.
T Consensus       191 ~~R~~~~l~~~l~~Ld~~sl~~kr~ITi~l~kevLa  226 (226)
T TIGR03420       191 GSRDMGSLMALLDALDRASLAAKRKITIPFVKEVLA  226 (226)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHC
T ss_conf             379899999999999999998089999999999849


No 55 
>PRK06893 DNA replication initiation factor; Validated
Probab=98.57  E-value=2.1e-05  Score=54.84  Aligned_cols=181  Identities=12%  Similarity=0.159  Sum_probs=117.2

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHH-CCHHHHHHHHHCCCCCCCCEEEEEECCCC---HHH
Q ss_conf             84799956996589999999999733566677307762088964-18999999871788888823999847741---045
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQ-KNISTFWNEINSTSLFSKKKIILIENLST---EKK   96 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~-~d~~~l~~~~~t~slF~~~klIii~~~~~---~k~   96 (352)
                      +.++++||+..--+....+.+...+.....   ....+...+.. .++ .+++.++      ..-+|++++...   .+.
T Consensus        39 ~~~l~i~G~~gsGKTHLLqa~~~~~~~~~~---~~~yi~~~~~~~~~~-~~l~~l~------~~d~l~iDDi~~i~g~~~  108 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQR---TAIYIPLSKSQYFSP-AVLENLE------QQDLVCLDDLQAVIGNEE  108 (229)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHHCC---CEEEEEHHHHHHCCH-HHHHHHH------HCCEEEEECHHHHCCCHH
T ss_conf             987999899999889999999999997189---859997377564069-9998765------479799967234248838


Q ss_pred             HHHHHHHHHHCCC-CCEEEE-EEECCCCCCH--HHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             7898898851056-560799-9852654311--35667654311210146644200135889887543025667567999
Q gi|254780804|r   97 VLDCLEEIIIKNI-CNHIII-IKSNEIKKNN--TLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQI  172 (352)
Q Consensus        97 ~~~~l~~~~~~~~-~~~~li-~~a~~l~k~~--kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~  172 (352)
                      ..+.+-.++..-- .+..++ +.+......-  .+-.+...-..+..+...+++......++..++...|+.+++++++|
T Consensus       109 ~e~~lF~l~N~l~~~~~~~ll~ss~~~p~~l~~~l~DL~SRl~~~~~~~i~~~dd~~~~~iL~~~a~~rgl~l~~~v~~y  188 (229)
T PRK06893        109 WELAIFDLFNRIKESGKTLLLISANQSPHALQIKLPDLASRLTWGEIYQLNDLTDEQKIEVLQRNAYQRGIELSDETANF  188 (229)
T ss_pred             HHHHHHHHHHHHHHCCCCEEEEECCCCHHHHCCHHHHHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHH
T ss_conf             99999999999997599179985798833221002679999968836996677757999999999996499999899999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCHHHHHHHHH
Q ss_conf             99620012355689999997510-3444348888877531
Q gi|254780804|r  173 LLANLGGDRIASRNELQKLSSYC-LEDILITEQHVKDIIC  211 (352)
Q Consensus       173 L~~~~g~d~~~l~~EleKL~ly~-~~~~~It~~dI~~~v~  211 (352)
                      |+.++..|+..+..-+++|--++ ..+++||..-|.++++
T Consensus       189 l~~r~~R~~~~l~~~l~~Ld~~sl~~kr~iTiplvkevL~  228 (229)
T PRK06893        189 LLKRLDRDMHTLFDALDLLDKASLQAQRKLTIPFVKEILG  228 (229)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHC
T ss_conf             9998347899999999999999998089999999999868


No 56 
>KOG0991 consensus
Probab=98.55  E-value=1.2e-05  Score=56.44  Aligned_cols=238  Identities=13%  Similarity=0.147  Sum_probs=163.7

Q ss_pred             HHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHC----CCCC--CCCE
Q ss_conf             532100101384799956996589999999999733566677307762088964189999998717----8888--8823
Q gi|254780804|r   11 QKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINS----TSLF--SKKK   84 (352)
Q Consensus        11 ~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t----~slF--~~~k   84 (352)
                      +..-+.-.++|  .+|.|+.---+...+.-+...+.++..-+ .+..+.+.+- ..++.+.+.+.+    .--.  |..|
T Consensus        40 ~via~~gnmP~--liisGpPG~GKTTsi~~LAr~LLG~~~ke-~vLELNASde-RGIDvVRn~IK~FAQ~kv~lp~grhK  115 (333)
T KOG0991          40 SVIAKEGNMPN--LIISGPPGTGKTTSILCLARELLGDSYKE-AVLELNASDE-RGIDVVRNKIKMFAQKKVTLPPGRHK  115 (333)
T ss_pred             HHHHHCCCCCC--EEEECCCCCCHHHHHHHHHHHHHCHHHHH-HHHHCCCCCC-CCCHHHHHHHHHHHHHHCCCCCCCEE
T ss_conf             99997289986--67527999861648999999983806665-7632057655-46089999999998720348998524


Q ss_pred             EEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             9998477410-457898898851056560799985265431135667654-31121014664420013588988754302
Q gi|254780804|r   85 IILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEK-FTSVLAISCYPDNKIHLMDLIEESLLIGQ  162 (352)
Q Consensus        85 lIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~-~~~~~~v~~~~~~~~~l~~~i~~~~~~~g  162 (352)
                      +||++.+... .....++-.-.+--+..|-+.+-...      ..|++|. ...++.+.+...+..++-.-+.+.++.++
T Consensus       116 IiILDEADSMT~gAQQAlRRtMEiyS~ttRFalaCN~------s~KIiEPIQSRCAiLRysklsd~qiL~Rl~~v~k~Ek  189 (333)
T KOG0991         116 IIILDEADSMTAGAQQALRRTMEIYSNTTRFALACNQ------SEKIIEPIQSRCAILRYSKLSDQQILKRLLEVAKAEK  189 (333)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHCCCCHHHHHHCC------HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHC
T ss_conf             8996152202068999999999997063200000154------2132226773457653222678999999999998707


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             56675679999962001235568999999751034443488888775310122111467888764102369999999853
Q gi|254780804|r  163 KSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLA  242 (352)
Q Consensus       163 ~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~  242 (352)
                      ++++++.++.++....+|++...|-|+--.   .+-+.++.|.|-+++......-+-.++-+++.++...|++++.+++.
T Consensus       190 v~yt~dgLeaiifta~GDMRQalNnLQst~---~g~g~Vn~enVfKv~d~PhP~~v~~ml~~~~~~~~~~A~~il~~lw~  266 (333)
T KOG0991         190 VNYTDDGLEAIIFTAQGDMRQALNNLQSTV---NGFGLVNQENVFKVCDEPHPLLVKKMLQACLKRNIDEALKILAELWK  266 (333)
T ss_pred             CCCCCCHHHHHHHHCCCHHHHHHHHHHHHH---CCCCCCCHHHHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf             887711477855441661999999999874---05452463231000699985999999999986129999999999997


Q ss_pred             HHCCCHHHHHHHHHHHHHH
Q ss_conf             1100014589999999999
Q gi|254780804|r  243 SKMPSHALLHGFLQKFQLL  261 (352)
Q Consensus       243 ~g~~~~~il~~L~~~f~~L  261 (352)
                      .|.+|.-|+..+.|-...+
T Consensus       267 lgysp~Dii~~~FRv~K~~  285 (333)
T KOG0991         267 LGYSPEDIITTLFRVVKNM  285 (333)
T ss_pred             CCCCHHHHHHHHHHHHHHC
T ss_conf             4898899999999999842


No 57 
>TIGR00678 holB DNA polymerase III, delta' subunit; InterPro: IPR004622   DNA-directed DNA polymerase (2.7.7.7 from EC) catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. DNA polymerase III is a complex, multi-chain enzyme responsible for most of the replicative synthesis in bacteria. The enzyme also has 3' to 5' exonuclease activity. It has a core composed of alpha, epsilon and theta chains, that associate with a tau subunit which allows the core dimerisation to form the PolIII' complex. PolIII' associates with the gamma complex (gamma, delta, delta', psi and chi chains) and with the beta chain. This domain is the N-terminal half of the delta' subunit of DNA polymerase III. Delta' is homologous to the gamma and tau subunits, which form an outgroup for phylogenetic comparison. The gamma/tau branch of the tree is much more tightly conserved than the delta' branch, and some members of that branch score more highly against this model than some proteins classified as delta'. The noise cut-off is set to detect weakly scoring delta' subunits rather than to exclude gamma/tau subunits.; GO: 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication.
Probab=98.49  E-value=2.4e-06  Score=61.04  Aligned_cols=165  Identities=16%  Similarity=0.178  Sum_probs=117.0

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHC--------------------CCCCCCCEEEEEEHHH------
Q ss_conf             87532100101384799956996589999999999733--------------------5666773077620889------
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNIS--------------------ITYHDPFSLVVLNALE------   62 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~--------------------~~~~~~~~~~~~~~~e------   62 (352)
                      +...++++ .++|. |||+|++-.-+...+..+.+.+.                    ...+.|+-.+.=++..      
T Consensus         4 l~~~~~~~-r~~HA-~LF~G~~G~Gk~~~A~~~A~~l~C~~~~~~~~Cg~C~~C~~~~~G~HPD~~~~~P~~~~~~~~~d   81 (216)
T TIGR00678         4 LQRALEKG-RLAHA-YLFTGPEGVGKELLALALAKALLCEPRGGGEPCGECHSCRLIEAGNHPDLHRLEPEGQSKSLTAD   81 (216)
T ss_pred             HHHHHHCC-CCCCC-EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCCCCEEEEEEECCCCCCCHH
T ss_conf             78898606-78861-25444888748999999999980778577888885888999870799823787423477777764


Q ss_pred             -----------------HHCC-HHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCC
Q ss_conf             -----------------6418-9999998717888888239998477410-45789889885105656079998526543
Q gi|254780804|r   63 -----------------IQKN-ISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKK  123 (352)
Q Consensus        63 -----------------~~~d-~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k  123 (352)
                                       |.-| +-.+.+++...|.=|++|||||+++... ......|.+.++.||+++++|+.+...++
T Consensus        82 e~~~~~~g~a~~~~~~~Ik~dq~R~l~~~~~~~~~~~~~rVviI~~Ae~mn~~AANALLKtLEEPp~~t~fiL~~~~~DP  161 (216)
T TIGR00678        82 EAAEGEEGSAKRRALPQIKVDQVRELVEFLSLTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITHSPDP  161 (216)
T ss_pred             HHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHEECCCCCEEEEEECCCCCH
T ss_conf             58976256421136787872789999999860642147517997673232589898651010127987079885088884


Q ss_pred             CHHHHHHHHH-HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             1135667654-3112101466442001358898875430256675679999962001235
Q gi|254780804|r  124 NNTLRKIAEK-FTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRI  182 (352)
Q Consensus       124 ~~kl~k~~e~-~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~  182 (352)
                      .    +++-+ ...+..++|.+++...+.+|+.+.....+.   ++++..++...||...
T Consensus       162 ~----~lLpTI~SRCq~~~f~~l~~~~~~~~L~~~g~~~~~---~~~a~~~~~~~~G~p~  214 (216)
T TIGR00678       162 E----RLLPTIRSRCQVLPFPPLSEEALLQWLIEQGISENV---PEAAELLLALAGGSPG  214 (216)
T ss_pred             H----HHCCCCCCCEEEEEECCCCHHHHHHHHHHCCCCCCC---HHHHHHHHHHHCCCCC
T ss_conf             3----322111032015862599889999999970878780---6899999998468512


No 58 
>PRK05642 DNA replication initiation factor; Validated
Probab=98.49  E-value=2.6e-05  Score=54.20  Aligned_cols=182  Identities=11%  Similarity=0.100  Sum_probs=117.7

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC---HHHH
Q ss_conf             8479995699658999999999973356667730776208896418999999871788888823999847741---0457
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST---EKKV   97 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~---~k~~   97 (352)
                      ++..++||+.---+....+.+...+...+   -....+...+.......+++.+      ..--+|+|+|...   ....
T Consensus        45 ~~~l~i~G~~G~GKTHLL~A~~~~~~~~~---~~~~yl~~~~~~~~~~~~~~~l------~~~d~l~IDDi~~i~g~~~~  115 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRG---EPAVYLPLAELLDRGPELLDNL------EQYELVCIDDLDVIAGKADW  115 (234)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCC---CCEEEEEHHHHHHHHHHHHHHH------HHCCEEEEECHHHHCCCHHH
T ss_conf             88389988999988999999999998079---9679978999875449998624------22798989364554688599


Q ss_pred             HHHHHHHHHCC-CCCEEEEEEECCCCCCHH--HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             89889885105-656079998526543113--566765431121014664420013588988754302566756799999
Q gi|254780804|r   98 LDCLEEIIIKN-ICNHIIIIKSNEIKKNNT--LRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILL  174 (352)
Q Consensus        98 ~~~l~~~~~~~-~~~~~li~~a~~l~k~~k--l~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~  174 (352)
                      .+.+-.++..- ..+..+++.+..-...-.  +..+...-..+.++...+++..+....++.++...|+.+++++++||+
T Consensus       116 e~~lF~l~N~~~~~~~~llits~~~P~~l~~~l~DL~SRl~~~~~~~i~~l~d~~~~~iL~~~a~~rgi~l~~~v~~yl~  195 (234)
T PRK05642        116 EEALFHLFNRLRDSGRRLLLAASKSPRELPVKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRGLHLTDEVGHFIL  195 (234)
T ss_pred             HHHHHHHHHHHHHCCCEEEEECCCCHHHHCCCHHHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             99999999999983995999578795552300167999995781275148998999999999977546899989999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCC-CCCCCCHHHHHHHHH
Q ss_conf             6200123556899999975103-444348888877531
Q gi|254780804|r  175 ANLGGDRIASRNELQKLSSYCL-EDILITEQHVKDIIC  211 (352)
Q Consensus       175 ~~~g~d~~~l~~EleKL~ly~~-~~~~It~~dI~~~v~  211 (352)
                      .++.-|+..+.+-+++|--++. .+++||...|.++++
T Consensus       196 ~r~~R~~~~L~~~l~~Ld~~sl~~kr~iTiplvk~vLg  233 (234)
T PRK05642        196 TRGTRSMSALFDLLERLDQASLQAQRKLTIPFLKETLG  233 (234)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHC
T ss_conf             97358899999999999999998389999999999838


No 59 
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=98.44  E-value=0.00018  Score=48.60  Aligned_cols=281  Identities=11%  Similarity=0.106  Sum_probs=149.4

Q ss_pred             HHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC-------------------CCCCCEEEEEE--HHHH-HC
Q ss_conf             88753210010138479995699658999999999973356-------------------66773077620--8896-41
Q gi|254780804|r    8 KFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISIT-------------------YHDPFSLVVLN--ALEI-QK   65 (352)
Q Consensus         8 ~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~-------------------~~~~~~~~~~~--~~e~-~~   65 (352)
                      ++.+....+ ..+| -|||+|++-.-....+..+.+.+.-.                   .+.++-...-+  ++.+ .+
T Consensus        14 ~l~~~~~~~-rl~H-A~L~~g~~G~Gk~~la~~la~~LlC~~~~~~~Cg~C~sC~l~~~g~HPD~~~i~pe~~~k~I~vd   91 (319)
T PRK06090         14 NWKSGLDAE-RIPG-ALLLQSDEGLGVESLVELFSHALLCQNYQSEACGFCHSCELMKSGNHPDLHVIKPEKEGKSITVE   91 (319)
T ss_pred             HHHHHHHCC-CCCC-EEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCCCCHH
T ss_conf             999999869-9630-67667999857999999999998089999998877877999875899982366123356768799


Q ss_pred             CHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf             89999998717888888239998477410-45789889885105656079998526543113566765431121014664
Q gi|254780804|r   66 NISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYP  144 (352)
Q Consensus        66 d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~  144 (352)
                      ++..+.+.+...|.-|+.|+|+|.++... .....+|-+.++.||+++++|+.+....+   +-..+  ...+..+.+.+
T Consensus        92 ~IR~l~~~~~~~~~~g~~KV~iI~~ae~m~~~AaNALLKtLEEPp~~t~fiL~t~~~~~---ll~TI--~SRCq~~~l~~  166 (319)
T PRK06090         92 QIRQCNRLAQESSQLGGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKR---LLPTI--VSRCQQWVVTP  166 (319)
T ss_pred             HHHHHHHHHHHCCCCCCCEEEEECCHHHCCHHHHHHHHHHHCCCCCCEEEEEEECCHHH---CCCCH--HHCCCCCCCCC
T ss_conf             99999999754521069369998144434999999999984289988389987685120---86418--76144502899


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHH
Q ss_conf             42001358898875430256675679999962001235568999999751034443488888775310122111467888
Q gi|254780804|r  145 DNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINA  224 (352)
Q Consensus       145 ~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~da  224 (352)
                      ++......|+++.    |......|    ....++....+..                  .++.-.-.....-...+.+ 
T Consensus       167 p~~~~~~~WL~~q----~~~~~~~a----L~l~~g~Pl~a~~------------------~l~~~~~~~~~~l~~~l~~-  219 (319)
T PRK06090        167 PSTDQAMQWLKGQ----GISVPAYA----LKLNMGSPLKTLA------------------MMKEGELEEYHKLERQLVD-  219 (319)
T ss_pred             CCHHHHHHHHHHH----CCCCHHHH----HHHCCCCCHHHHH------------------HHCCCHHHHHHHHHHHHHH-
T ss_conf             5999999999884----87557999----9884999499999------------------8638689999999999999-


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHH
Q ss_conf             76410236999999985311000145899999999999999983025689899998608999976899999998649989
Q gi|254780804|r  225 TIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKN  304 (352)
Q Consensus       225 i~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~  304 (352)
                      ++.++....+.....+ .  .++...+.-|..-+....+++     .|......         .   + ...++.+++..
T Consensus       220 ~~~~~~~~~~~~~~~~-~--~~~~~~L~Wl~~lL~Da~K~~-----~gi~~~~~---------~---~-~~~~l~~l~~~  278 (319)
T PRK06090        220 ALSGPVSDVLKCASLI-A--ADPLTALSWLWLLLTDAQKAH-----FGVQNEYI---------L---P-GSAALGPFTYS  278 (319)
T ss_pred             HHHCCCCHHHHHHHHH-C--CCHHHHHHHHHHHHHHHHHHH-----HCCCCCHH---------H---H-HHHHHHHCCHH
T ss_conf             9847884199998873-6--057778999999999999998-----60521066---------6---6-79999841899


Q ss_pred             HHHHHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999953289-9989999999999999631
Q gi|254780804|r  305 LVRETLHKIDHRIHLARKKK-YLEKNIIFQTILYIAQTAC  343 (352)
Q Consensus       305 ~l~~~l~~L~~~d~~~K~~~-~~~~~il~~~ll~l~~~a~  343 (352)
                      .+...+..+.++-.++.+.+ .+.+.++.+.+++.....|
T Consensus       279 ~L~~~~~~l~~~r~qL~~~~~lN~ELll~~~Ll~~~~~~c  318 (319)
T PRK06090        279 GLYASTAKLLELKEQLQQFSGLNTELLIMNWLIESREALC  318 (319)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHC
T ss_conf             9999999999999999718872699999999999878743


No 60 
>PRK08084 DNA replication initiation factor; Provisional
Probab=98.42  E-value=5.8e-05  Score=51.91  Aligned_cols=181  Identities=10%  Similarity=0.074  Sum_probs=119.9

Q ss_pred             CEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC---HHHHH
Q ss_conf             479995699658999999999973356667730776208896418999999871788888823999847741---04578
Q gi|254780804|r   22 FVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST---EKKVL   98 (352)
Q Consensus        22 ~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~---~k~~~   98 (352)
                      ...++||+.---+....+.+...+...+   ....++..++...-...+.+.+++      --+|.|+|...   .....
T Consensus        46 ~~l~l~G~~G~GKTHLLqA~~~~~~~~~---~~~~yl~~~~~~~~~~~~l~~l~~------~dll~iDDi~~i~g~~~~e  116 (235)
T PRK08084         46 GYIYLWGREGAGRSHLLHAACAELSQRG---DAVGYVPLDKRAWFVPEVLEGMEQ------LSLVCIDNIECIAGDELWE  116 (235)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHCCC---CCEEEEEHHHHHHHHHHHHHHHHH------CCEEEEECHHHHCCCHHHH
T ss_conf             7699989999888999999999997079---857998779866517999987641------8989982745546997899


Q ss_pred             HHHHHHHHCC--CCCEEEEEEECCCCCCHH--HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q ss_conf             9889885105--656079998526543113--566765431121014664420013588988754302566756799999
Q gi|254780804|r   99 DCLEEIIIKN--ICNHIIIIKSNEIKKNNT--LRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILL  174 (352)
Q Consensus        99 ~~l~~~~~~~--~~~~~li~~a~~l~k~~k--l~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~  174 (352)
                      +.+-.++..-  ...+.+|+.+......-.  +-.+...-..+.++...+++..+....++.++...|+.+++++++||+
T Consensus       117 e~lF~l~N~~~~~g~~~ll~ts~~~P~~l~~~l~DL~SRl~~g~~~~i~~~dde~~~~iL~~~a~~rgl~l~~~V~~yl~  196 (235)
T PRK08084        117 MAIFDLYNRILESGKTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLL  196 (235)
T ss_pred             HHHHHHHHHHHHHCCCEEEEECCCCHHHCCCCCHHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHH
T ss_conf             99999999999848966999679882430231288999995697278559998999999999999739999989999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCC-CCCCCHHHHHHHHH
Q ss_conf             62001235568999999751034-44348888877531
Q gi|254780804|r  175 ANLGGDRIASRNELQKLSSYCLE-DILITEQHVKDIIC  211 (352)
Q Consensus       175 ~~~g~d~~~l~~EleKL~ly~~~-~~~It~~dI~~~v~  211 (352)
                      .++..|+..+..-+++|-.++.. +++||...|.+++.
T Consensus       197 ~~~~R~~~~L~~~l~~Ld~~Sl~~kr~iTip~vkevL~  234 (235)
T PRK08084        197 KRLDREMRTLFMTLDQLDKASITAQRKLTIPFVKEILK  234 (235)
T ss_pred             HHCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHC
T ss_conf             86158899999999999999998199999999999965


No 61 
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=98.42  E-value=0.0002  Score=48.34  Aligned_cols=157  Identities=15%  Similarity=0.183  Sum_probs=90.7

Q ss_pred             HHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCC---CCCC---------------EEEEEE--HHHH-HC
Q ss_conf             7887532100101384799956996589999999999733566---6773---------------077620--8896-41
Q gi|254780804|r    7 HKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITY---HDPF---------------SLVVLN--ALEI-QK   65 (352)
Q Consensus         7 ~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~---~~~~---------------~~~~~~--~~e~-~~   65 (352)
                      .+.++..-++...+|. |||+| +.|- ...+..+.+.+.-..   ..+.               .+..+.  +.-+ .+
T Consensus        11 ~~~l~~~i~~~rl~HA-yLf~G-~~Gk-~~~A~~~A~~l~C~~~~~~~pCg~C~~C~~i~~~~hpDv~~i~~~~~~I~vd   87 (290)
T PRK07276         11 FQRFQTILEQDRLNHA-YLFSG-DFAS-FEMALFLAQSLFCEQKEDVLPCGHCRSCRLIEQGDFSDVTVIEPQGQVIKTD   87 (290)
T ss_pred             HHHHHHHHHCCCCCEE-EECCC-CCCH-HHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCCCCCCCEEECCCCCCCCHH
T ss_conf             9999999984996505-42169-8687-9999999999818999998989889999998769998713771677757688


Q ss_pred             CHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf             89999998717888888239998477410-45789889885105656079998526543113566765431121014664
Q gi|254780804|r   66 NISTFWNEINSTSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYP  144 (352)
Q Consensus        66 d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~  144 (352)
                      ++..+.+.+...|+-|.+|++||.++... ......|...++.||+++++|+.+.+...-   --.+  ...+..++| |
T Consensus        88 ~IR~l~~~~~~~~~~g~~KV~II~~Ad~mt~~AaNaLLK~LEEPp~~t~~iLlt~~~~~l---LpTI--~SRCQ~i~f-p  161 (290)
T PRK07276         88 TIRELTANFSQSGYEGKRQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKV---LPTI--KSRTQIFHF-P  161 (290)
T ss_pred             HHHHHHHHHHHCCCCCCEEEEEECCHHHCCHHHHHHHHHHHCCCCCCCEEEEEECCHHHC---CHHH--HHCCCCCCC-C
T ss_conf             999999998445613782799977656529999999999703898883799887992549---3788--736601028-9


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             4200135889887543025667567999996200
Q gi|254780804|r  145 DNKIHLMDLIEESLLIGQKSISKEAKQILLANLG  178 (352)
Q Consensus       145 ~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g  178 (352)
                      ....    .+...+.+.|  +.+.-++.++...+
T Consensus       162 ~~~~----~l~~~l~~~g--i~~~~a~~la~~~~  189 (290)
T PRK07276        162 KNEA----YLYQLLEEKG--LLKTQAKLLAKLAQ  189 (290)
T ss_pred             CCHH----HHHHHHHHCC--CCHHHHHHHHHHHC
T ss_conf             9679----9999999869--98679999999965


No 62 
>PRK05818 DNA polymerase III subunit delta'; Validated
Probab=98.37  E-value=4.6e-05  Score=52.55  Aligned_cols=181  Identities=15%  Similarity=0.094  Sum_probs=118.1

Q ss_pred             HHHHHHHHHCCCCCC-CCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf             999999871788888-823999847741-045789889885105656079998526543113566765431121014664
Q gi|254780804|r   67 ISTFWNEINSTSLFS-KKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYP  144 (352)
Q Consensus        67 ~~~l~~~~~t~slF~-~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~  144 (352)
                      ...+.+.....|.-+ ++|+++|.++.. ......+|...++.||+++++|+.+.+...-   --.+ .+ .++-...-+
T Consensus        73 ir~li~~l~~~s~e~~g~KV~II~~Ae~Mt~~AANALLKtLEEPp~nt~fIL~t~~~~~L---LPTI-rS-RC~~~~~~~  147 (262)
T PRK05818         73 ALSIINKLNRPSVESNGKKIYIIYGIEKLNKQSANSLLKLIEEPPKNTYGIFTTRNENNI---LNTI-LS-RCVQYVVLS  147 (262)
T ss_pred             HHHHHHHHHHCCCCCCCCEEEEECCHHHHCHHHHHHHHHHHCCCCCCEEEEEEECCHHHC---CCHH-HH-HCCCCCCCC
T ss_conf             999999982114002884899987778749999999998612898783899973881437---3088-87-701446664


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHH
Q ss_conf             4200135889887543025667567999996200-123556899999975103444348888877531012211146788
Q gi|254780804|r  145 DNKIHLMDLIEESLLIGQKSISKEAKQILLANLG-GDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIIN  223 (352)
Q Consensus       145 ~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g-~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~d  223 (352)
                      ...+...+...+......+.++...++.+++... ++.+.+..=++-+..  .+++.++.++|..+.+.-..+-+.+|.+
T Consensus       148 ~~~~~~~~~~~~~~~~~~i~~~~~s~de~~~~~~~gs~~~~l~il~~~i~--~~n~~~~~~~~~~l~~~i~~~~i~~ll~  225 (262)
T PRK05818        148 KEKKVPFKVESNDRYFQYILLSFYSVDEQLQAYNNGSFSKLKNIIETLIN--KKNKLIQIHKAWILFKTFSYYEIAQLLN  225 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH--CCCCCEEHHHHHHHHHCCCHHHHHHHHH
T ss_conf             34667888874088898764101107999988616768889999999987--5688433999999983135999999998


Q ss_pred             HHH---HHHHHHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             876---4102369999999853110001458999
Q gi|254780804|r  224 ATI---QGKIYNAIMLADFFLASKMPSHALLHGF  254 (352)
Q Consensus       224 ai~---~~~~~~a~~~l~~l~~~g~~~~~il~~L  254 (352)
                      .+.   .++...++.-+-..+.-+-+--.++..+
T Consensus       226 ~~~~~~d~~~k~~~~~~~~~~~~n~~~~~l~~~~  259 (262)
T PRK05818        226 LLIPTVDPEKKSKLYNLLSNLKYNLPKTALFANI  259 (262)
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             7312668522688998998774497689999997


No 63 
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=98.36  E-value=0.00017  Score=48.85  Aligned_cols=203  Identities=14%  Similarity=0.185  Sum_probs=128.7

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHC------CCCCCCCEEEEEECCCC
Q ss_conf             384799956996589999999999733566677307762088964189999998717------88888823999847741
Q gi|254780804|r   20 SHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINS------TSLFSKKKIILIENLST   93 (352)
Q Consensus        20 ~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t------~slF~~~klIii~~~~~   93 (352)
                      .++..+|||+.-.-+....+.+...+... +..-.+..+...+...+   +..++..      ...+ .-.+++|+|...
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~-~~~a~v~y~~se~f~~~---~v~a~~~~~~~~Fk~~y-~~dlllIDDiq~  186 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALAN-GPNARVVYLTSEDFTND---FVKALRDNEMEKFKEKY-SLDLLLIDDIQF  186 (408)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHHHHHH-CCCCEEEECCHHHHHHH---HHHHHHHHHHHHHHHHH-CCCEEEECHHHH
T ss_conf             68957998799997899999999999862-99864885048998999---99998850488888764-267355513867


Q ss_pred             ---HHHHHHHHHHHHHCCC-CCEEEEEEECCCCCCHH--HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCH
Q ss_conf             ---0457898898851056-56079998526543113--56676543112101466442001358898875430256675
Q gi|254780804|r   94 ---EKKVLDCLEEIIIKNI-CNHIIIIKSNEIKKNNT--LRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISK  167 (352)
Q Consensus        94 ---~k~~~~~l~~~~~~~~-~~~~li~~a~~l~k~~k--l~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~  167 (352)
                         .....+.+...+..-. .+..+|+.+...++.-.  .-.+...-+-+..+..-|++.......++..+...|+.+++
T Consensus       187 l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~~~~~i~~  266 (408)
T COG0593         187 LAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPD  266 (408)
T ss_pred             HCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHHCCCCHHHHHHHHCEEEEEECCCCHHHHHHHHHHHHHHCCCCCCH
T ss_conf             56771579999999998885088799970788322110358899898630577527988899999999999865888887


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC-CCCHHHHHHHHHCCCC----CCHHHHHHHHHH
Q ss_conf             67999996200123556899999975103444-3488888775310122----111467888764
Q gi|254780804|r  168 EAKQILLANLGGDRIASRNELQKLSSYCLEDI-LITEQHVKDIICDTHV----LYIEEIINATIQ  227 (352)
Q Consensus       168 ~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~-~It~~dI~~~v~~~~~----~~if~L~dai~~  227 (352)
                      +++.+++..+..|++.+...+++|..|+...+ .||.+.+.+++.+...    .++.++...++.
T Consensus       267 ev~~~la~~~~~nvReLegaL~~l~~~a~~~~~~iTi~~v~e~L~~~~~~~~~itie~I~~~Va~  331 (408)
T COG0593         267 EVLEFLAKRLDRNVRELEGALNRLDAFALFTKRAITIDLVKEILKDLLRAGEKITIEDIQKIVAE  331 (408)
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             99999999700309999999999999998538757699999999986401455899999999998


No 64 
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=98.35  E-value=0.0003  Score=47.15  Aligned_cols=202  Identities=14%  Similarity=0.203  Sum_probs=130.3

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCC------CCCCEEEEEECCC--
Q ss_conf             84799956996589999999999733566677307762088964189999998717888------8882399984774--
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSL------FSKKKIILIENLS--   92 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~sl------F~~~klIii~~~~--   92 (352)
                      |+ .+|||.--.-+....+.+...+... ..+..+.++.+++...   .+.+.+.+-.+      +-+--+++|+|..  
T Consensus       146 NP-LfIyG~~GlGKTHLl~AIgn~~~~~-~p~~~v~Y~tae~F~~---~~v~al~~~~~~~Fr~~yr~~DvLliDDiqfl  220 (447)
T PRK00149        146 NP-LFIYGGVGLGKTHLLHAIGNYILEK-NPNAKVVYVSSEKFTN---DFVKALRNNAMEEFKEKYRSVDVLLIDDIQFL  220 (447)
T ss_pred             CC-EEEECCCCCCHHHHHHHHHHHHHHH-CCCCEEEEEEHHHHHH---HHHHHHHCCCHHHHHHHHHCCCEEEECHHHHH
T ss_conf             85-5897799887889999999999985-8997289954999999---99999851869999999972885432148886


Q ss_pred             -CHHHHHHHHHHHHHCC-CCCEEEEEEECCCCCCHH-HH-HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHH
Q ss_conf             -1045789889885105-656079998526543113-56-6765431121014664420013588988754302566756
Q gi|254780804|r   93 -TEKKVLDCLEEIIIKN-ICNHIIIIKSNEIKKNNT-LR-KIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKE  168 (352)
Q Consensus        93 -~~k~~~~~l~~~~~~~-~~~~~li~~a~~l~k~~k-l~-k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~  168 (352)
                       +..+..+.+-..+..- ..+--+|+.++..++.-+ +- .+...-..+..++..+++...-...++..+...|+.++++
T Consensus       221 ~gk~~tqeeff~~fn~l~~~~kqiv~tsd~~P~~l~~l~~rL~SRf~~Gl~~~i~~Pd~e~r~~Il~~k~~~~~~~l~~~  300 (447)
T PRK00149        221 AGKEKTQEEFFHTFNALHENNKQIVITSDRPPKELEGLEDRLRSRFEWGLTVDIEPPDLETRVAILQKKAEEEGINLPNE  300 (447)
T ss_pred             HCCHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHCCCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHHHCCCCCCHH
T ss_conf             05577999999999999984996899578896765651177886763762651059999999999999999728999989


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCHHHHHHHHHCC-----CCCCHHHHHHHHHH
Q ss_conf             7999996200123556899999975103-44434888887753101-----22111467888764
Q gi|254780804|r  169 AKQILLANLGGDRIASRNELQKLSSYCL-EDILITEQHVKDIICDT-----HVLYIEEIINATIQ  227 (352)
Q Consensus       169 a~~~L~~~~g~d~~~l~~EleKL~ly~~-~~~~It~~dI~~~v~~~-----~~~~if~L~dai~~  227 (352)
                      ++++|++.+.+|.+.+...|.+|..|+. ...+||.+.+..++.+.     ...++..+.+++..
T Consensus       301 v~~~iA~~~~~nvR~LeGal~~l~a~~~~~~~~i~~~~~~~~l~~~~~~~~~~it~~~I~~~Va~  365 (447)
T PRK00149        301 VLEFIAKRIRSNIRELEGALNRLVAYASLTGRPITLELAKEALKDLLRLQKKQITIENIQKVVAE  365 (447)
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHH
T ss_conf             99999971268899999999999999998689999999999999874036787899999999998


No 65 
>PRK08727 hypothetical protein; Validated
Probab=98.27  E-value=0.00018  Score=48.62  Aligned_cols=183  Identities=8%  Similarity=0.065  Sum_probs=116.4

Q ss_pred             EEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC---HHHHHH
Q ss_conf             79995699658999999999973356667730776208896418999999871788888823999847741---045789
Q gi|254780804|r   23 VFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST---EKKVLD   99 (352)
Q Consensus        23 iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~---~k~~~~   99 (352)
                      ..++||+.---+....+.+.......+   .+..+++..+........++.+      ...-+|.|++...   ......
T Consensus        43 ~lyl~G~~GsGKTHLl~a~~~~~~~~~---~~~~yl~l~~~~~~~~~~l~~l------e~~~ll~iDDid~i~g~~~~e~  113 (233)
T PRK08727         43 WLYLSGPAGTGKTHLALSLCAAAEQAG---RSSAYLPLQAAAGRLRDALEAL------EGRSLVALDGVDSIAGQREDEV  113 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC---CCEEEEEHHHHHHHHHHHHHHH------CCCCEEEEECCHHCCCCHHHHH
T ss_conf             899989999988999999999998279---9728844788532025677531------0389789855011269827999


Q ss_pred             HHHHHHHCC-CCCEEEEEEECCCCCCHH--HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             889885105-656079998526543113--56676543112101466442001358898875430256675679999962
Q gi|254780804|r  100 CLEEIIIKN-ICNHIIIIKSNEIKKNNT--LRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLAN  176 (352)
Q Consensus       100 ~l~~~~~~~-~~~~~li~~a~~l~k~~k--l~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~  176 (352)
                      .+-.++..- ..+..+++.+......-.  +-.+...-..+..+...+++.......+..++...|+.+++++++||+.+
T Consensus       114 aLFhL~N~~~~~~~~ll~ts~~~P~~l~~~l~DL~SRL~~~~~~~l~~~dD~~~~~iL~~~a~~rgl~l~~~V~~Yll~r  193 (233)
T PRK08727        114 ALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLSQCIRIGLPVLDDVARAAVLRDRAQRRGLALDEAAIDWLLTH  193 (233)
T ss_pred             HHHHHHHHHHHCCCEEEEECCCCHHHHCCCHHHHHHHHHCCCEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             99999999986198389977989566231002199999669228857889799999999999986999998999999985


Q ss_pred             HHHHHHHHHHHHHHHHHHC-CCCCCCCHHHHHHHHHCCC
Q ss_conf             0012355689999997510-3444348888877531012
Q gi|254780804|r  177 LGGDRIASRNELQKLSSYC-LEDILITEQHVKDIICDTH  214 (352)
Q Consensus       177 ~g~d~~~l~~EleKL~ly~-~~~~~It~~dI~~~v~~~~  214 (352)
                      +.-|+..+.+-+++|--++ ..+++||.--|.+++...+
T Consensus       194 ~~R~~~~l~~~l~~LD~~SL~~kr~iTip~vk~vL~e~~  232 (233)
T PRK08727        194 GERELAGLVALLDRLDRESLAAKRRITVPFLRRVLEEGR  232 (233)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCC
T ss_conf             688999999999999999998089888999999997226


No 66 
>pfam00308 Bac_DnaA Bacterial dnaA protein.
Probab=98.27  E-value=2.7e-05  Score=54.07  Aligned_cols=169  Identities=12%  Similarity=0.177  Sum_probs=109.6

Q ss_pred             EEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCC------CCCCCEEEEEECCCC---
Q ss_conf             79995699658999999999973356667730776208896418999999871788------888823999847741---
Q gi|254780804|r   23 VFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTS------LFSKKKIILIENLST---   93 (352)
Q Consensus        23 iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~s------lF~~~klIii~~~~~---   93 (352)
                      .+++||+.---+....+.+...+... .....+..++.+++..+.   .+.+..-.      -+..-.+++++|...   
T Consensus        36 pl~i~G~~G~GKTHLLqA~~~~~~~~-~~~~~v~yl~~~~~~~~~---~~~l~~~~~~~f~~~l~~~d~l~iDDi~~l~~  111 (219)
T pfam00308        36 PLFIYGGVGLGKTHLLHAIGNYALRN-FPNLRVVYLTSEEFLNDF---VDALRDNKIEAFKKSYRNVDLLLIDDIQFLAG  111 (219)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHH-CCCCEEEEEEHHHHHHHH---HHHHHCCCHHHHHHHHHHCCHHHHCCHHHHCC
T ss_conf             26998899998889999999999984-999828884399999988---99998188889999976323365223676568


Q ss_pred             HHHHHHHHHHHHHC-CCCCEEEEEEECCCCCCH--HHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             04578988988510-565607999852654311--356676543112101466442001358898875430256675679
Q gi|254780804|r   94 EKKVLDCLEEIIIK-NICNHIIIIKSNEIKKNN--TLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAK  170 (352)
Q Consensus        94 ~k~~~~~l~~~~~~-~~~~~~li~~a~~l~k~~--kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~  170 (352)
                      .....+.+-.++.. ...+..+|+.+..-...-  ....+...-..+.+++..+++.......++.+++..|+.++++++
T Consensus       112 ~~~~ee~lf~l~N~~~~~~~~lllts~~~p~~l~~~~~dL~SRL~~g~~~~i~~pdd~~~~~iL~~~a~~r~l~l~~~v~  191 (219)
T pfam00308       112 KEKTQEEFFHTFNALHENNKQIVLTSDRPPKELEGFEDRLRSRFEWGLIIAIEPPDLETRLAILRKKAEEENINIPNEVL  191 (219)
T ss_pred             CHHHHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHHHCCCCCCHHHH
T ss_conf             64789999999999997298699977998100245327799998687566116999999999999999984999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf             9999620012355689999997510
Q gi|254780804|r  171 QILLANLGGDRIASRNELQKLSSYC  195 (352)
Q Consensus       171 ~~L~~~~g~d~~~l~~EleKL~ly~  195 (352)
                      ++|+.++..|++.+..-|++|..|+
T Consensus       192 ~yl~~r~~R~~r~L~~~L~~L~~~~  216 (219)
T pfam00308       192 NFIAQRITDNVRELEGALNRLLAFA  216 (219)
T ss_pred             HHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             9999842798999999999999855


No 67 
>PRK08903 hypothetical protein; Validated
Probab=98.22  E-value=0.00013  Score=49.53  Aligned_cols=180  Identities=9%  Similarity=0.095  Sum_probs=115.1

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCCHH-HHHH
Q ss_conf             847999569965899999999997335666773077620889641899999987178888882399984774104-5789
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLSTEK-KVLD   99 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~~k-~~~~   99 (352)
                      .+.+++||+.---+....+.+...+....   .+..+++..+.   .+ ..+..      ..-.+|+|++..... ....
T Consensus        42 ~~~l~i~G~~G~GKTHLl~a~~~~~~~~~---~~~~yl~~~~~---~~-~~~~~------~~~d~l~iDDi~~i~~~~q~  108 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVAAASEGG---KNARYLDPASP---LL-AFDFD------PRAELYAVDDVERLDDAQQI  108 (227)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCC---CCEEEECCCCC---HH-HHHHH------HCCCEEEEECCCCCCCHHHH
T ss_conf             86699989999988899999999998069---97499651104---57-77420------01898999641148956999


Q ss_pred             HHHHHHHCC--CCCEEEEEEECCCCCCHHH-HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             889885105--6560799985265431135-6676543112101466442001358898875430256675679999962
Q gi|254780804|r  100 CLEEIIIKN--ICNHIIIIKSNEIKKNNTL-RKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLAN  176 (352)
Q Consensus       100 ~l~~~~~~~--~~~~~li~~a~~l~k~~kl-~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~  176 (352)
                      .+-.++..-  .....+++.+..-.....+ -.+...-..+..+...+++......+++.++...|+.+++++++||+.+
T Consensus       109 ~lF~l~N~~~~~~~~~ll~s~~~~p~~l~~~~DL~SRl~~gl~~~i~~pdde~~~~iL~~~a~~rgl~l~~~v~~yl~~r  188 (227)
T PRK08903        109 ALFNLFNRVRAHGKTALLVAGPAAPLALDVREDLRTRLGWGLVYEVKPLSDEDKIAALKAAAAERGLQLADEVPDYLLTH  188 (227)
T ss_pred             HHHHHHHHHHHCCCCEEEECCCCCHHHCCCCHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             99999999997299489971899712012008999999389738997979999999999999962999988999999998


Q ss_pred             HHHHHHHHHHHHHHHHHHCC-CCCCCCHHHHHHHHHCC
Q ss_conf             00123556899999975103-44434888887753101
Q gi|254780804|r  177 LGGDRIASRNELQKLSSYCL-EDILITEQHVKDIICDT  213 (352)
Q Consensus       177 ~g~d~~~l~~EleKL~ly~~-~~~~It~~dI~~~v~~~  213 (352)
                      +..|...+..-+++|--++. .+++||..-|.++++..
T Consensus       189 ~~R~~~~L~~~l~~Ld~~sl~~kr~iTi~lvkevLa~~  226 (227)
T PRK08903        189 FRRDMPSLMALLDALDRYSLEQKRAVTLPLLREMLAAP  226 (227)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCC
T ss_conf             34789999999999999999829999999999985599


No 68 
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=98.16  E-value=0.00055  Score=45.43  Aligned_cols=159  Identities=16%  Similarity=0.192  Sum_probs=104.3

Q ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC------------------CCCEEEEEEHHHHHC---CHHHHHHHHHCC
Q ss_conf             13847999569965899999999997335666------------------773077620889641---899999987178
Q gi|254780804|r   19 LSHFVFIFYGSDKGLIFELINQFKKNISITYH------------------DPFSLVVLNALEIQK---NISTFWNEINST   77 (352)
Q Consensus        19 ~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~------------------~~~~~~~~~~~e~~~---d~~~l~~~~~t~   77 (352)
                      ++| -|||+|++---+...+..+.+.+.....                  ...++..+...+...   -.+.+.+...+.
T Consensus        23 ~~h-alL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~  101 (325)
T COG0470          23 LPH-ALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFL  101 (325)
T ss_pred             CCC-CEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHC
T ss_conf             876-1003799999789999999999658664334552002244432025688659977321333300699999999860


Q ss_pred             CCC---CCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             888---88239998477410-45789889885105656079998526543113566765431121014664420013588
Q gi|254780804|r   78 SLF---SKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDL  153 (352)
Q Consensus        78 slF---~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~  153 (352)
                      +..   ++.|+|+|+++... .....++...++.|+.++.+|+.+...   +++...+  ...+..+.|.+.+......|
T Consensus       102 ~~~~~~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~---~~il~tI--~SRc~~i~f~~~~~~~~i~~  176 (325)
T COG0470         102 SESPLEGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDP---SKILPTI--RSRCQRIRFKPPSRLEAIAW  176 (325)
T ss_pred             CCCCCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEEEEECCH---HHCHHHH--HHHEEEEECCCCCHHHHHHH
T ss_conf             446566772699973203269888876754332488871699974985---5564787--75607887677418899998


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98875430256675679999962001235568999999751
Q gi|254780804|r  154 IEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSY  194 (352)
Q Consensus       154 i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly  194 (352)
                      ..           ++++..++...++|++...+-++-++..
T Consensus       177 ~e-----------~~~l~~i~~~~~gd~r~~i~~lq~~~~~  206 (325)
T COG0470         177 LE-----------DQGLEEIAAVAEGDARKAINPLQALAAL  206 (325)
T ss_pred             HH-----------HHHHHHHHHHHCCHHHHHCCHHHHHHHC
T ss_conf             50-----------7579999987040688734899999861


No 69 
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=98.08  E-value=0.0011  Score=43.37  Aligned_cols=200  Identities=15%  Similarity=0.186  Sum_probs=128.3

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCC------CCCCEEEEEECCC--
Q ss_conf             84799956996589999999999733566677307762088964189999998717888------8882399984774--
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSL------FSKKKIILIENLS--   92 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~sl------F~~~klIii~~~~--   92 (352)
                      |+ .+|||+--.-+-...+.+-+.+..+   ...+.++.+++...   .+.+.+.+-.+      +-+--+++|+|..  
T Consensus       142 NP-LfIyG~~GlGKTHLL~AIgn~i~~~---~~kV~Yvtae~F~~---~~v~ai~~~~~~~Fr~~yr~~DvLLIDDIQfl  214 (455)
T PRK12422        142 NP-IYLFGPEGSGKTHLMQAAVSALRES---GGKILYVSSELFTE---HLVSAIRSGEMQRFRSFYRNVDALFIEDIEVF  214 (455)
T ss_pred             CC-EEEECCCCCCHHHHHHHHHHHHHCC---CCEEEEECHHHHHH---HHHHHHHCCCHHHHHHHHHCCCEEEEEHHHHH
T ss_conf             87-5887899997899999999985379---98699974999999---99999975889999999963887763147887


Q ss_pred             -CHHHHHHHHHHHHHCC-CCCEEEEEEECCCCCCHH-HH-HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHH
Q ss_conf             -1045789889885105-656079998526543113-56-6765431121014664420013588988754302566756
Q gi|254780804|r   93 -TEKKVLDCLEEIIIKN-ICNHIIIIKSNEIKKNNT-LR-KIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKE  168 (352)
Q Consensus        93 -~~k~~~~~l~~~~~~~-~~~~~li~~a~~l~k~~k-l~-k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~  168 (352)
                       +..+..+.+-..+..- ..+--+|+.++..++.-+ +- .+...-..+..++..|++.......++..+...|+.++.+
T Consensus       215 ~gK~~tqeEff~tfN~L~~~~KQIVitsDr~P~el~~l~~RL~SRf~~GL~v~I~~Pd~etr~~Il~~k~~~~~~~l~~e  294 (455)
T PRK12422        215 SGKGATQEEFFHTFNSLHTEGKLIVISSSYAPGDLKAMEERLISRFEWGIAIPIHPLTREGLRSFLMRQAEQLSIRIEET  294 (455)
T ss_pred             HCCHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHCCEEECCCCCCHHHHHHHHHHHHHHCCCCCCHH
T ss_conf             28488999999999999985996999689895765126899998863761321689998999999999998718888446


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH---HHC-CCCCCCCHHHHHHHHHCCC------CCCHHHHHHHHHH
Q ss_conf             799999620012355689999997---510-3444348888877531012------2111467888764
Q gi|254780804|r  169 AKQILLANLGGDRIASRNELQKLS---SYC-LEDILITEQHVKDIICDTH------VLYIEEIINATIQ  227 (352)
Q Consensus       169 a~~~L~~~~g~d~~~l~~EleKL~---ly~-~~~~~It~~dI~~~v~~~~------~~~if~L~dai~~  227 (352)
                      +++++++.+.+|.+.+...+.+|.   .|. .....++.+++..++.+..      ..++..+.+++..
T Consensus       295 v~~~iA~~i~~niReLeGal~~l~~~~~~~~~~~~~i~~~~~~~~l~d~~~~~~~~~it~~~I~~~Va~  363 (455)
T PRK12422        295 ALDFLIQALSSNVKTLLHALTLLAKRVAYKKLSHQLLYEDDIKALLHDVLEAAESVRLTPSGIVRAVAQ  363 (455)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHH
T ss_conf             899999997551799999999999999987156883649999999998742245765899999999998


No 70 
>PRK07132 DNA polymerase III subunit delta'; Validated
Probab=98.05  E-value=0.0005  Score=45.69  Aligned_cols=161  Identities=16%  Similarity=0.209  Sum_probs=98.7

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC-------CCCEEEEEEHHHHH---CCHHHHHHHHH
Q ss_conf             378875321001013847999569965899999999997335666-------77307762088964---18999999871
Q gi|254780804|r    6 SHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH-------DPFSLVVLNALEIQ---KNISTFWNEIN   75 (352)
Q Consensus         6 ~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~-------~~~~~~~~~~~e~~---~d~~~l~~~~~   75 (352)
                      --+.+++.-++...+| .|||+|+..-.+...+..+.+.+.....       .+.+...++..+..   .+.....++..
T Consensus         6 iv~~L~nai~~~klsH-AYLF~G~~G~Gk~~~a~~~a~~l~~~~~~~~~~~~~~~~~~~id~~~~~i~~~~i~~~i~~~~   84 (303)
T PRK07132          6 IIKSLDNLAKQNKISH-SFLLKSNYNNDLDESILYFLNKFNNLQSLNLNLEELPYNIFLFDIFDEDLSKEEFLSAIEKFS   84 (303)
T ss_pred             HHHHHHHHHHCCCCCE-EEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             9999999998499761-688678998679999999999972998788875456532304133222001688999999997


Q ss_pred             CCCCCCC-CEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             7888888-23999847741-045789889885105656079998526543113566765431121014664420013588
Q gi|254780804|r   76 STSLFSK-KKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDL  153 (352)
Q Consensus        76 t~slF~~-~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~  153 (352)
                      ..|..++ .|+++++++.. +.....+|...++.||+++++++.+.+..+=   -..+  ...+..+.+.+.+..++...
T Consensus        85 ~~~~~~~~~Kv~IIdea~~lt~~A~NaLLKtLEEPp~~~~fil~t~~~~~i---l~TI--~SRCq~~~f~~~~~~~i~~~  159 (303)
T PRK07132         85 FSSFVSNQKKILIIKNIEKTSNSSLNALLKTIEEPSKNTYFLLTTKNINKV---IPTI--VSRCQVINVKEPDQQKILAK  159 (303)
T ss_pred             HCCCCCCCEEEEEEECHHHCCHHHHHHHHHHCCCCCCCEEEEEEECCHHHC---CHHH--HHCCEEEECCCCCHHHHHHH
T ss_conf             366556870699981655339999999998703898684899972882438---3778--63665663788999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             9887543025667567999996200
Q gi|254780804|r  154 IEESLLIGQKSISKEAKQILLANLG  178 (352)
Q Consensus       154 i~~~~~~~g~~i~~~a~~~L~~~~g  178 (352)
                      +.+.      ...++....++....
T Consensus       160 l~e~------~~~~e~~~~~a~~~~  178 (303)
T PRK07132        160 LLSQ------NKEKEFEKFYAYIFK  178 (303)
T ss_pred             HHHC------CCCCHHHHHHHHHHC
T ss_conf             9864------775278999999974


No 71 
>PRK09087 hypothetical protein; Validated
Probab=97.88  E-value=0.0012  Score=43.10  Aligned_cols=188  Identities=11%  Similarity=0.129  Sum_probs=113.2

Q ss_pred             HHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEE
Q ss_conf             37887532100101384799956996589999999999733566677307762088964189999998717888888239
Q gi|254780804|r    6 SHKFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKI   85 (352)
Q Consensus         6 ~~~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~kl   85 (352)
                      +.+++.....  |- .+..++||+..--+....+...+....        ..++...+..+.   .+       ....+.
T Consensus        32 a~~~l~~~~~--w~-~~~~~L~Gp~gsGKTHL~~~~~~~~~a--------~~~~~~~~~~~~---~~-------~~~~~~   90 (226)
T PRK09087         32 AVSLVDRWPN--WP-SPVVVLAGPVGSGKTHLASIWREKADA--------LLVHPNEIGSDA---AN-------AAAERP   90 (226)
T ss_pred             HHHHHHHCCC--CC-CCEEEEECCCCCCHHHHHHHHHHHHCC--------EEECHHHCCHHH---HH-------HHCCCC
T ss_conf             9999984726--77-775899899999886999999998099--------683668747466---76-------532798


Q ss_pred             EEEECCCCHHHHHHHHHHHHHC-CCCCEEEEEEECCCCCC--HHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             9984774104578988988510-56560799985265431--13566765431121014664420013588988754302
Q gi|254780804|r   86 ILIENLSTEKKVLDCLEEIIIK-NICNHIIIIKSNEIKKN--NTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQ  162 (352)
Q Consensus        86 Iii~~~~~~k~~~~~l~~~~~~-~~~~~~li~~a~~l~k~--~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g  162 (352)
                      +++++.....-..+.+-.++.. ...+..+++.+......  -++..+...-..+..+...++++..+...+.+.+...|
T Consensus        91 ~~idd~d~~~~dEe~LFhl~N~~~~~~~~LLlts~~~p~~l~~~L~DL~SRL~~~~~~~I~~pdD~ll~~~L~k~~~~r~  170 (226)
T PRK09087         91 VLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSAWNVKLPDLKSRLKAATVVEIGEPDDALLSGVIFKLFADRQ  170 (226)
T ss_pred             EEEECCCCCCCCHHHHHHHHHHHHHCCCEEEEECCCCHHHCCCCCHHHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHCC
T ss_conf             89974877774789999999999853987999889895666762468999985785798359998999999999987576


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCHHHHHHHHHCCC
Q ss_conf             566756799999620012355689999997510-3444348888877531012
Q gi|254780804|r  163 KSISKEAKQILLANLGGDRIASRNELQKLSSYC-LEDILITEQHVKDIICDTH  214 (352)
Q Consensus       163 ~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~-~~~~~It~~dI~~~v~~~~  214 (352)
                      +.++++++.||+.++.-++..+..-+++|--++ ..+++||.--|.+++..-.
T Consensus       171 l~l~~~v~~yll~r~~Rs~~~l~~~l~~LD~~SL~~kr~ITiplikevL~~l~  223 (226)
T PRK09087        171 LYVEPHVVYYLVSRMERSLFAAQTIVERLDRLALERKSRITRALAAEVLNEMG  223 (226)
T ss_pred             CCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHC
T ss_conf             57888899999984588999999999999999998189998999999998511


No 72 
>KOG2028 consensus
Probab=97.87  E-value=0.0026  Score=40.97  Aligned_cols=239  Identities=12%  Similarity=0.133  Sum_probs=136.2

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHH-HHCCHHHHHHHHHCCCCCCCCE-EE
Q ss_conf             875321001013847999569965899999999997335666773077620889-6418999999871788888823-99
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALE-IQKNISTFWNEINSTSLFSKKK-II   86 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e-~~~d~~~l~~~~~t~slF~~~k-lI   86 (352)
                      .+.+..++.....  .++||+.---+...+..|.+......   +..+.+.... -+.|...+++.....-.+..+| ++
T Consensus       152 llrs~ieq~~ipS--mIlWGppG~GKTtlArlia~tsk~~S---yrfvelSAt~a~t~dvR~ife~aq~~~~l~krkTil  226 (554)
T KOG2028         152 LLRSLIEQNRIPS--MILWGPPGTGKTTLARLIASTSKKHS---YRFVELSATNAKTNDVRDIFEQAQNEKSLTKRKTIL  226 (554)
T ss_pred             HHHHHHHCCCCCC--EEEECCCCCCHHHHHHHHHHHCCCCC---EEEEEEECCCCCHHHHHHHHHHHHHHHHHHCCEEEE
T ss_conf             8999987088870--58866998765889999986057774---279997414566188999999988787652440698


Q ss_pred             EEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH------
Q ss_conf             9847741-045789889885105656079998526543113566765431121014664420013588988754------
Q gi|254780804|r   87 LIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLL------  159 (352)
Q Consensus        87 ii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~------  159 (352)
                      +++...- .|...+.+..   ..-...++++-+..-.++-.+-..+  ...+-++...++..+.+...+..-..      
T Consensus       227 FiDEiHRFNksQQD~fLP---~VE~G~I~lIGATTENPSFqln~aL--lSRC~VfvLekL~~n~v~~iL~raia~l~dse  301 (554)
T KOG2028         227 FIDEIHRFNKSQQDTFLP---HVENGDITLIGATTENPSFQLNAAL--LSRCRVFVLEKLPVNAVVTILMRAIASLGDSE  301 (554)
T ss_pred             EEHHHHHHHHHHHHCCCC---EECCCCEEEEECCCCCCCCCHHHHH--HHCCCEEEECCCCHHHHHHHHHHHHHHHCCCC
T ss_conf             737765532321100342---1306706998536689760112778--73160667336888999999999987632102


Q ss_pred             H------C-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHC---C--CCCCCCHHHHHHHHHCCC------C----C
Q ss_conf             3------0-2566756799999620012355689999997-510---3--444348888877531012------2----1
Q gi|254780804|r  160 I------G-QKSISKEAKQILLANLGGDRIASRNELQKLS-SYC---L--EDILITEQHVKDIICDTH------V----L  216 (352)
Q Consensus       160 ~------~-g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~-ly~---~--~~~~It~~dI~~~v~~~~------~----~  216 (352)
                      +      + -..++..++++|+..+.+|.+...|.||-.. .++   +  .+..++.+||.+.+..+.      .    .
T Consensus       302 r~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~Lems~~m~~tr~g~~~~~~lSidDvke~lq~s~~~YDr~Ge~HYn  381 (554)
T KOG2028         302 RPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNALEMSLSMFCTRSGQSSRVLLSIDDVKEGLQRSHILYDRAGEEHYN  381 (554)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEECHHHHHHHHHHCCCEECCCCHHHHH
T ss_conf             56889998312456889999987047318888778999999887524776564002888999985312000455305778


Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             11467888764102369999999853110001458999999
Q gi|254780804|r  217 YIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQK  257 (352)
Q Consensus       217 ~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~  257 (352)
                      .|..|-.++-.||...++.++.++++.|++|+.+-+.+.|.
T Consensus       382 tISA~HKSmRG~D~nAslY~LaRMLegGEdPLYVARRlvR~  422 (554)
T KOG2028         382 TISALHKSMRGSDQNASLYWLARMLEGGEDPLYVARRLVRF  422 (554)
T ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             99999876017765527999999971688707999999987


No 73 
>PRK06620 hypothetical protein; Validated
Probab=97.75  E-value=0.0017  Score=42.25  Aligned_cols=184  Identities=17%  Similarity=0.214  Sum_probs=108.3

Q ss_pred             HHHHHHHHHHH--HHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCC
Q ss_conf             37887532100--1013847999569965899999999997335666773077620889641899999987178888882
Q gi|254780804|r    6 SHKFIQKSTKN--LFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKK   83 (352)
Q Consensus         6 ~~~~~~~~~~~--~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~   83 (352)
                      ++++++.-.+.  ..-.+...++||+..--+....+...+....        ........   .+.         ++...
T Consensus        27 A~~~i~~wp~~~~~~~~~~~l~I~Gp~gSGKTHL~~i~~~~~~a--------~~~~~~~~---~~~---------~~~~~   86 (214)
T PRK06620         27 AYNIIKNWQCMFGVNPYKFTLLIKGPSSSGKTYLTKIWQNLSNA--------YIIKDIFF---NEE---------ILEKY   86 (214)
T ss_pred             HHHHHHHCHHCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCC--------EEECHHHC---CHH---------HHHHC
T ss_conf             99999836302566865555999879999889999999998285--------88151214---587---------88437


Q ss_pred             EEEEEECCCCHHHHHHHHHHHHHC-CCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCC
Q ss_conf             399984774104578988988510-5656079998526543113566765431121014664420013588988754302
Q gi|254780804|r   84 KIILIENLSTEKKVLDCLEEIIIK-NICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQ  162 (352)
Q Consensus        84 klIii~~~~~~k~~~~~l~~~~~~-~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g  162 (352)
                      ..+++++......  +.+..++.. ...+..+++.+......-++..+...-+.+..+...++++..+...+.+.+...|
T Consensus        87 ~~~iiddid~~~e--~~lfhlfN~~~~~~~~llits~~~p~~~~L~DL~SRl~~~~~~~i~~PdD~l~~~ll~k~~~~r~  164 (214)
T PRK06620         87 NAFIIEDIENWQE--PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSISS  164 (214)
T ss_pred             CCEEEECCCCCCH--HHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCHHHHHHCCCEEECCCCCHHHHHHHHHHHHHHCC
T ss_conf             9379846775746--79999999997159879998279852245357899985464433269898999999999999869


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCHHHHHHHHH
Q ss_conf             566756799999620012355689999997510-3444348888877531
Q gi|254780804|r  163 KSISKEAKQILLANLGGDRIASRNELQKLSSYC-LEDILITEQHVKDIIC  211 (352)
Q Consensus       163 ~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~-~~~~~It~~dI~~~v~  211 (352)
                      +.++++.++||+.+++-++..+..-+++|--++ ..+++||..-+.+++.
T Consensus       165 i~i~~~vi~yl~~ri~Rs~~~l~~~v~~ld~~sl~~kr~Iti~likevL~  214 (214)
T PRK06620        165 VTISRQIIDFLLVNLPREYSKIIEILENINYFALISKRKITISLVKEVLN  214 (214)
T ss_pred             CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHC
T ss_conf             98875599999998517899999999999999998399988999999839


No 74 
>pfam05496 RuvB_N Holliday junction DNA helicase ruvB N-terminus. The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.
Probab=97.58  E-value=0.0032  Score=40.31  Aligned_cols=164  Identities=10%  Similarity=0.148  Sum_probs=96.5

Q ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC-HHHH
Q ss_conf             138479995699658999999999973356667730776208896418999999871788888823999847741-0457
Q gi|254780804|r   19 LSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST-EKKV   97 (352)
Q Consensus        19 ~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~-~k~~   97 (352)
                      +.|  .||||+.---+-..++.+.+....      +.....+..+. ....+...+   .-...+.+++|+...- .|..
T Consensus        50 l~h--~lf~GPPG~GKTTlAriiAk~~~~------~~~~~s~~~i~-~~~di~~~l---~~~~~~~ILFIDEIHr~nK~q  117 (234)
T pfam05496        50 LDH--VLLYGPPGLGKTTLANIIANEMGV------NIRITSGPALE-KPGDLAAIL---TNLEPGDVLFIDEIHRLNRAV  117 (234)
T ss_pred             CCE--EEEECCCCCCHHHHHHHHHHHHCC------CEEEECCHHHH-HHHHHHHHH---HHCCCCCEEEEECHHHCCHHH
T ss_conf             662--788789999888999999984087------53761426664-389999999---845899889996654358768


Q ss_pred             HHHHHHHHHC----------CCCCE-------EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             8988988510----------56560-------799985265431135667654311210146644200135889887543
Q gi|254780804|r   98 LDCLEEIIIK----------NICNH-------IIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLI  160 (352)
Q Consensus        98 ~~~l~~~~~~----------~~~~~-------~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~  160 (352)
                      .+.|..++++          |+..+       +.++-|.-  ...++-..+ .+...++..+.+.+..++...++..++.
T Consensus       118 qd~Llp~vE~g~i~i~ig~~~~A~~~~~e~P~FtLIgATT--e~~~l~~pl-~sR~~i~~~l~~l~~edl~~il~r~~~~  194 (234)
T pfam05496       118 EEILYPAMEDFRLDIVIGKGPSARSIRLDLPPFTLVGATT--RAGLLTSPL-RDRFGIVLRLEFYSVEELEEIVKRSARI  194 (234)
T ss_pred             HHHCCCCCCCCEEEEEECCCCCCEEEECCCCCEEEEEECC--CCCCCCHHH-HHHHHHEEECCCCCHHHHHHHHHHHHHH
T ss_conf             8744553346169999636766324652689759985215--666477779-9762112442468999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             0256675679999962001235568999999751034
Q gi|254780804|r  161 GQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLE  197 (352)
Q Consensus       161 ~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~  197 (352)
                      .|++++++|+.+++..++||.+...|-|++..-|+.-
T Consensus       195 l~i~i~~eal~~IA~~s~Gd~R~ALnlLe~v~d~a~~  231 (234)
T pfam05496       195 LGVEIDEEGAAEIARRSRGTPRIANRLLRRVRDFAQV  231 (234)
T ss_pred             CCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf             3999599999999997799899998999999999987


No 75 
>KOG0990 consensus
Probab=97.40  E-value=0.012  Score=36.58  Aligned_cols=221  Identities=14%  Similarity=0.090  Sum_probs=141.1

Q ss_pred             HHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC-C----CCEEEEEEHHHHHCCHHHHHHHHHCCCCCCC---CEEEE
Q ss_conf             01013847999569965899999999997335666-7----7307762088964189999998717888888---23999
Q gi|254780804|r   16 NLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH-D----PFSLVVLNALEIQKNISTFWNEINSTSLFSK---KKIIL   87 (352)
Q Consensus        16 ~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~-~----~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~---~klIi   87 (352)
                      ...++|  -|+||+...-.--.+......+..+.+ .    ++|...=.|-++.......+....++..|+.   -|+||
T Consensus        59 ~~~lPh--~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~rgid~vr~qi~~fast~~~~~fst~~~fKlvI  136 (360)
T KOG0990          59 MPGLPH--LLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDDRGIDPVRQQIHLFASTQQPTTYSTHAAFKLVI  136 (360)
T ss_pred             CCCCCC--CCCCCCCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCEECCCCCCEEEEE
T ss_conf             888975--343489988998736665665058998246999864367668861478889877641640002467615887


Q ss_pred             EECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             847741-0457898898851056560799985265431135667654311210146644200135889887543025667
Q gi|254780804|r   88 IENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSIS  166 (352)
Q Consensus        88 i~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~  166 (352)
                      ++.+.. ..+...+|...++.-..++.+.+.+....+-+.-     ....+.-.++.|++......-+.+......+.++
T Consensus       137 LDEADaMT~~AQnALRRviek~t~n~rF~ii~n~~~ki~pa-----~qsRctrfrf~pl~~~~~~~r~shi~e~e~~~~~  211 (360)
T KOG0990         137 LDEADAMTRDAQNALRRVIEKYTANTRFATISNPPQKIHPA-----QQSRCTRFRFAPLTMAQQTERQSHIRESEQKETN  211 (360)
T ss_pred             ECCHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCHHHCCCH-----HHCCCCCCCCCCCCHHHHHHHHHHHHHCCHHHCC
T ss_conf             33413766989999999998713323799861676446814-----6410445787888754424678888715311038


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC--CCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5679999962001235568999999751034443--4888887753101221114678887641023699999998531
Q gi|254780804|r  167 KEAKQILLANLGGDRIASRNELQKLSSYCLEDIL--ITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLAS  243 (352)
Q Consensus       167 ~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~--It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~  243 (352)
                      ++....++..+-+|++...|-|+-...+.....+  ++.++|..+.+.....++-+++..++.+....+..-+..+...
T Consensus       212 ~~~~~a~~r~s~gDmr~a~n~Lqs~~~~~~~~~e~~~~~~~vy~c~g~p~~~dI~~I~~~il~~~~~~~~~~is~lk~~  290 (360)
T KOG0990         212 PEGYSALGRLSVGDMRVALNYLQSILKKVMERKELNNPNDLVYQCKGAPQPSDIRQIIEKRMNGEDIELMLDDSELKKP  290 (360)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             7889999998677799999999999998577787777215678714999766799999997228249887525654033


No 76 
>KOG2035 consensus
Probab=97.09  E-value=0.025  Score=34.40  Aligned_cols=227  Identities=12%  Similarity=0.118  Sum_probs=136.5

Q ss_pred             CEEEEECCCHHHHHHHHHHHHHHHCCCC---------------CCCCEEEEEEH--------HHHH-CC----HHHHHHH
Q ss_conf             4799956996589999999999733566---------------67730776208--------8964-18----9999998
Q gi|254780804|r   22 FVFIFYGSDKGLIFELINQFKKNISITY---------------HDPFSLVVLNA--------LEIQ-KN----ISTFWNE   73 (352)
Q Consensus        22 ~iyLi~G~d~~l~~~~~~~l~k~~~~~~---------------~~~~~~~~~~~--------~e~~-~d----~~~l~~~   73 (352)
                      +=+++||+.-.-+...+--+.+.+-+.+               +.-.++.....        .+.. .|    .+-+-+-
T Consensus        35 PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlEitPSDaG~~DRvViQellKev  114 (351)
T KOG2035          35 PHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLEITPSDAGNYDRVVIQELLKEV  114 (351)
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHCCCCHHEEEEEEEEECCCCCEEEEEEECCCCEEEECHHHCCCCCHHHHHHHHHHH
T ss_conf             70788888988721118999998857872450566678864888637999942565177473433751179999999998


Q ss_pred             HHCCCCCC----CCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHH-HHHHHHCCCCCCCC
Q ss_conf             71788888----823999847741-0457898898851056560799985265431135667654-31121014664420
Q gi|254780804|r   74 INSTSLFS----KKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEK-FTSVLAISCYPDNK  147 (352)
Q Consensus        74 ~~t~slF~----~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~-~~~~~~v~~~~~~~  147 (352)
                      ++|.++-.    +-|+|++..+.. .++...+|-.-.++-..++-+|+..+..++      .++. ...+..|.+..++.
T Consensus       115 AQt~qie~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cns~Sr------iIepIrSRCl~iRvpaps~  188 (351)
T KOG2035         115 AQTQQIETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNSTSR------IIEPIRSRCLFIRVPAPSD  188 (351)
T ss_pred             HHHCCHHHCCCCCEEEEEEECHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCC------CHHHHHHHEEEEECCCCCH
T ss_conf             7414133326665489998035765088999999999998607169999267430------2267762205876789987


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             01358898875430256675679999962001235568999999751034443488888775310122111467888764
Q gi|254780804|r  148 IHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQ  227 (352)
Q Consensus       148 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~  227 (352)
                      .++...+...++++|+.+..+.+..+++.+++|++...=-+|-...-   +.+-+.+- ..+....=+.-+-++.+.+..
T Consensus       189 eeI~~vl~~v~~kE~l~lp~~~l~rIa~kS~~nLRrAllmlE~~~~~---n~~~~a~~-~~i~~~dWe~~i~e~a~~i~~  264 (351)
T KOG2035         189 EEITSVLSKVLKKEGLQLPKELLKRIAEKSNRNLRRALLMLEAVRVN---NEPFTANS-QVIPKPDWEIYIQEIARVILK  264 (351)
T ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHC---CCCCCCCC-CCCCCCCHHHHHHHHHHHHHH
T ss_conf             89999999999873344849999999997064399999999999854---65432557-877994499999999999986


Q ss_pred             HHHHHH----HHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             102369----9999998531100014589999999
Q gi|254780804|r  228 GKIYNA----IMLADFFLASKMPSHALLHGFLQKF  258 (352)
Q Consensus       228 ~~~~~a----~~~l~~l~~~g~~~~~il~~L~~~f  258 (352)
                      .+...-    -..+-+|+....||-.|+.-|..++
T Consensus       265 eQs~~~L~~vR~~LYeLL~~CIPP~~Ilk~Ll~~L  299 (351)
T KOG2035         265 EQSPAKLLEVRGRLYELLSHCIPPNTILKELLEEL  299 (351)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             03878899999999999865698588999999999


No 77 
>KOG1969 consensus
Probab=96.94  E-value=0.034  Score=33.50  Aligned_cols=196  Identities=16%  Similarity=0.154  Sum_probs=121.7

Q ss_pred             CEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCC---HHHHHHHHHCCCCC---CCCEEEEEECCCC-H
Q ss_conf             479995699658999999999973356667730776208896418---99999987178888---8823999847741-0
Q gi|254780804|r   22 FVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKN---ISTFWNEINSTSLF---SKKKIILIENLST-E   94 (352)
Q Consensus        22 ~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d---~~~l~~~~~t~slF---~~~klIii~~~~~-~   94 (352)
                      .|-|++|+--.-+...+.-+.++.+      |.++.+.+.+-...   -+.+.+.+.+-|..   +...+++++...+ .
T Consensus       327 KilLL~GppGlGKTTLAHViAkqaG------YsVvEINASDeRt~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~  400 (877)
T KOG1969         327 KILLLCGPPGLGKTTLAHVIAKQAG------YSVVEINASDERTAPMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP  400 (877)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCC------CEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCCC
T ss_conf             0687536887872479999998628------5488732555434788999999988641122568886359984246872


Q ss_pred             HHHHHHHHHHHHC-------CCC--------------CEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             4578988988510-------565--------------6079998526543113566765431121014664420013588
Q gi|254780804|r   95 KKVLDCLEEIIIK-------NIC--------------NHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDL  153 (352)
Q Consensus        95 k~~~~~l~~~~~~-------~~~--------------~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~  153 (352)
                      ....+.+...+..       +..              .-.+|....++- .-.++.+-   ..+.++.|.++....+..-
T Consensus       401 ~~~Vdvilslv~a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLY-aPaLR~Lr---~~A~ii~f~~p~~s~Lv~R  476 (877)
T KOG1969         401 RAAVDVILSLVKATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLY-APALRPLR---PFAEIIAFVPPSQSRLVER  476 (877)
T ss_pred             HHHHHHHHHHHHHHCCHHHCCCCCCHHHHHHHCCCCCCCCEEEEECCCC-CHHHHHCC---CCEEEEEECCCCHHHHHHH
T ss_conf             8999999999974161421686632034555304654587789864755-53333102---1048999569976689999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCCHHHHHHHHHCCC--CCCHHHHHHHHHH
Q ss_conf             98875430256675679999962001235568999999751034-44348888877531012--2111467888764
Q gi|254780804|r  154 IEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLE-DILITEQHVKDIICDTH--VLYIEEIINATIQ  227 (352)
Q Consensus       154 i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~-~~~It~~dI~~~v~~~~--~~~if~L~dai~~  227 (352)
                      +++.+..+|.+++..++..|++.+.+|.+...|-|+=|+.-... +..|+..+|.+......  ..++|++.-.+++
T Consensus       477 L~~IC~rE~mr~d~~aL~~L~el~~~DIRsCINtLQfLa~~~~r~ds~i~~~~i~a~~~~~k~~~~slf~~w~ei~q  553 (877)
T KOG1969         477 LNEICHRENMRADSKALNALCELTQNDIRSCINTLQFLASNVDRRDSSISVKLICAKNVGAKSNSDSLFSWWKEIFQ  553 (877)
T ss_pred             HHHHHHHHCCCCCHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHH
T ss_conf             99997641577887899999998613098888899999970444344311221133330244564336899999988


No 78 
>pfam05673 DUF815 Protein of unknown function (DUF815). This family consists of several bacterial proteins of unknown function.
Probab=96.89  E-value=0.037  Score=33.27  Aligned_cols=160  Identities=14%  Similarity=0.141  Sum_probs=104.1

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCC--H----HHH
Q ss_conf             9995699658999999999973356667730776208896418999999871788888823999847741--0----457
Q gi|254780804|r   24 FIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLST--E----KKV   97 (352)
Q Consensus        24 yLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~--~----k~~   97 (352)
                      .|+||.--.-+...++.+...+..++   ..++..+-.++ .+...+++.+...|.   +=+|.+++.+-  .    +..
T Consensus        56 vLLwG~RGtGKSSlVKall~~~~~~g---LrlIEv~k~~L-~~Lp~i~~~l~~~~~---kFIiF~DDLSFe~~d~~yk~L  128 (248)
T pfam05673        56 VLLWGARGTGKSSLVKALLNEYADQG---LRLIEVDKDDL-GDLPDIVDLLRGRPY---RFILFCDDLSFEEGESSYKAL  128 (248)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC---CEEEEECHHHH-CCHHHHHHHHHCCCC---CEEEEECCCCCCCCCHHHHHH
T ss_conf             67676898988899999999863149---56999878887-219999999964997---579996355767897369999


Q ss_pred             HHHHHHHHHCCCCCEEEEEEECC----------------CCCCHHHHHHHH-HHHHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             89889885105656079998526----------------543113566765-4311210146644200135889887543
Q gi|254780804|r   98 LDCLEEIIIKNICNHIIIIKSNE----------------IKKNNTLRKIAE-KFTSVLAISCYPDNKIHLMDLIEESLLI  160 (352)
Q Consensus        98 ~~~l~~~~~~~~~~~~li~~a~~----------------l~k~~kl~k~~e-~~~~~~~v~~~~~~~~~l~~~i~~~~~~  160 (352)
                      ...|+--++.+|+++.+..++..                +.....+--.+. ....+..+.||+.+..+.-..|+.+++.
T Consensus       129 Ks~LeG~l~~~p~NvliYaTSNRRHLi~e~~~d~~~~~ei~~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~  208 (248)
T pfam05673       129 KSVLEGGLEARPDNVLIYATSNRRHLIPEYMSDNEGDGEIHPGDAVEEKLSLSDRFGLWLGFHPFDQDEYLAIVRGYAAR  208 (248)
T ss_pred             HHHHCCCCCCCCCEEEEEEECCCHHCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHCCEEEEECCCCHHHHHHHHHHHHHH
T ss_conf             99965764468873899984270003633323477744367255777453489867717850799999999999999998


Q ss_pred             CCCCCCHH-----HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             02566756-----7999996200123556899999
Q gi|254780804|r  161 GQKSISKE-----AKQILLANLGGDRIASRNELQK  190 (352)
Q Consensus       161 ~g~~i~~~-----a~~~L~~~~g~d~~~l~~EleK  190 (352)
                      +|+.++++     |+..=..+-+-.-+...|=+.-
T Consensus       209 ~~~~~~~e~l~~~Al~wa~~rg~rSGR~A~QFi~~  243 (248)
T pfam05673       209 LGLPLDEEELRREALQWALTRGGRSGRTARQFIDD  243 (248)
T ss_pred             CCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHH
T ss_conf             29999989999999999998389858879999999


No 79 
>PRK06581 DNA polymerase III subunit delta'; Validated
Probab=96.87  E-value=0.0092  Score=37.31  Aligned_cols=112  Identities=13%  Similarity=0.102  Sum_probs=69.1

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCC------CCCEEEEEEHH------HH-HCCHHHHHHHHH
Q ss_conf             875321001013847999569965899999999997335666------77307762088------96-418999999871
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYH------DPFSLVVLNAL------EI-QKNISTFWNEIN   75 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~------~~~~~~~~~~~------e~-~~d~~~l~~~~~   75 (352)
                      .+++.-+|.-+.|. |||.|++.-..-+.+.++........+      .++.+.+.+..      .+ .+.+..+.+.+.
T Consensus         4 ~L~n~lknnKlsns-~l~~~~N~~~~l~~~~~fi~~~~~~~~~~le~~pd~~~i~~~~~~~sn~KnI~IdQIR~L~~fl~   82 (263)
T PRK06581          4 RLEFNLKHNKLYNS-WLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNISIEQIRKLQDFLN   82 (263)
T ss_pred             HHHHHHHCCHHHHH-HHHCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             89888741324466-64307886799999999999998626865235832888742034566567357999999999963


Q ss_pred             CCCCCCCCEEEEEECCCCH-HHHHHHHHHHHHCCCCCEEEEEEECCC
Q ss_conf             7888888239998477410-457898898851056560799985265
Q gi|254780804|r   76 STSLFSKKKIILIENLSTE-KKVLDCLEEIIIKNICNHIIIIKSNEI  121 (352)
Q Consensus        76 t~slF~~~klIii~~~~~~-k~~~~~l~~~~~~~~~~~~li~~a~~l  121 (352)
                      ..|.-|+.|+++|+++... .....+|...++.||.++++++.+...
T Consensus        83 ~ts~~s~~KV~IId~Ae~mn~~AaNALLK~LEEPP~nt~iiLiT~~~  129 (263)
T PRK06581         83 KTSAISGYKVAIIYSADLMNLNAANSCLKILEDAPKNSYIFLITSRA  129 (263)
T ss_pred             HCCCCCCCEEEEEECHHHHCHHHHHHHHHHHCCCCCCCEEEEEECCH
T ss_conf             47546894599994767749898998998741898782899986982


No 80 
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family; InterPro: IPR014252   This entry shows some relation to the widely distributed ATP-dependent protease La, also called Lon or LonA (IPR004815 from INTERPRO), but is more closely related to LonB (IPR014251 from INTERPRO), a LonA paralog found only in endospore-forming bacteria. Proteins in this entry are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ). They are restricted to a subset of endospore-forming species, and probably participate in the program of endospore formation. We propose the designation LonC..
Probab=96.40  E-value=0.08  Score=31.08  Aligned_cols=200  Identities=11%  Similarity=0.148  Sum_probs=125.7

Q ss_pred             HHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCC----CCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCC-
Q ss_conf             8875321001013847999569965899999999997335----66677307762088964189999998717888888-
Q gi|254780804|r    8 KFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISI----TYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSK-   82 (352)
Q Consensus         8 ~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~----~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~-   82 (352)
                      .++.+.-+.+=+ |  .++||+.---+-..++......+.    +...+-+.+..||..+.|||.++     |-||.|. 
T Consensus       166 aLlaK~aSPfPQ-H--iiLYGPPGVGKTTaARl~LEe~K~~~~tPF~~DA~FvEVDGtTLRWDPREv-----TNPLLGSV  237 (616)
T TIGR02903       166 ALLAKLASPFPQ-H--IILYGPPGVGKTTAARLALEEAKKLKNTPFAEDAPFVEVDGTTLRWDPREV-----TNPLLGSV  237 (616)
T ss_pred             HHHHHHCCCCCC-C--EEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCC-----CCCCCCCC
T ss_conf             999763188866-0--785573388478999998762136874476113785751576266774101-----47767762


Q ss_pred             --------CE-----------EEEEECCCC------H-HHHHHHHHHHHHCCCCCEEEEEEECCCCCCH-----HHHHHH
Q ss_conf             --------23-----------999847741------0-4578988988510565607999852654311-----356676
Q gi|254780804|r   83 --------KK-----------IILIENLST------E-KKVLDCLEEIIIKNICNHIIIIKSNEIKKNN-----TLRKIA  131 (352)
Q Consensus        83 --------~k-----------lIii~~~~~------~-k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~-----kl~k~~  131 (352)
                              ||           .=+|.+|.+      . -...-.|+.-+.+-..|--+-|.|.-.++.+     -++++|
T Consensus       238 HDPIYQGa~RDLAE~GvPEPk~GLVT~AHGGvLFIDEIGELD~lLQnKLLKVLEDKrV~F~SsYYDpdD~NvPkYIK~lF  317 (616)
T TIGR02903       238 HDPIYQGARRDLAETGVPEPKLGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDENVPKYIKKLF  317 (616)
T ss_pred             CCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCHHHHHHH
T ss_conf             57655676401104787989898710047756765021122278763244432264366532124875378655888852


Q ss_pred             HHH-----------------------HHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH--HHHH
Q ss_conf             543-----------------------112101466442001358898875430256675679999962001235--5689
Q gi|254780804|r  132 EKF-----------------------TSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRI--ASRN  186 (352)
Q Consensus       132 e~~-----------------------~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~--~l~~  186 (352)
                      |+-                       ..|..|=|-|++..++...|.+.+.+.|..+.++.-..++.++=.-+.  .+-.
T Consensus       318 e~GAPADFvLIGATTr~P~eINpALRSRCaEvfFePL~p~dI~~Iv~~AA~klnv~L~~gV~e~Ia~YTieGRkAvnILA  397 (616)
T TIGR02903       318 EEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIKEIVLNAAEKLNVKLAEGVEELIARYTIEGRKAVNILA  397 (616)
T ss_pred             CCCCCCCEEEECCCCCCHHHCCHHHHCCCCEEECCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHCCCCCHHHHHHHH
T ss_conf             26888256872661588244051233014313217988789999999988861770003648787214713112223465


Q ss_pred             HHHHHHHHCC-------CCCCCCHHHHHHHHHCCCC
Q ss_conf             9999975103-------4443488888775310122
Q gi|254780804|r  187 ELQKLSSYCL-------EDILITEQHVKDIICDTHV  215 (352)
Q Consensus       187 EleKL~ly~~-------~~~~It~~dI~~~v~~~~~  215 (352)
                      -.-=+++|..       ++=+|+.+||..+|+.++-
T Consensus       398 D~Yg~~ly~~~~~~~~~d~~~I~~~dv~evv~~sRl  433 (616)
T TIGR02903       398 DVYGYALYKKAEALKEEDKVTITADDVKEVVQISRL  433 (616)
T ss_pred             HHHHHHHHCCCCCCCCCCCEEEEHHHHHHHHHHCCC
T ss_conf             467676530455567777426618677767753045


No 81 
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=96.39  E-value=0.082  Score=31.02  Aligned_cols=208  Identities=13%  Similarity=0.104  Sum_probs=114.8

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCH----HHHHHHHHCCC------
Q ss_conf             87532100101384799956996589999999999733566677307762088964189----99999871788------
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNI----STFWNEINSTS------   78 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~----~~l~~~~~t~s------   78 (352)
                      +++..-.+- ...++| +||+.---+.-.++.+.+.+... ..++.....++.... .+    ..+.+.+.-.+      
T Consensus        45 ~l~~~l~g~-~~~n~~-I~G~pGTGKT~~vk~v~~~l~~~-~~~~~~vyINc~~~~-t~~~i~~~i~~~L~~~~~p~~G~  120 (394)
T PRK00411         45 ALRPALRGS-RPSNVL-ILGPPGTGKTTTVKKVFEELEEA-ALKVVYVYINCQIDR-TRYAILSEIARSLFGHPPPSSGL  120 (394)
T ss_pred             HHHHHHCCC-CCCCEE-EECCCCCCHHHHHHHHHHHHHHH-CCCCEEEEEECCCCC-CHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             999997599-998479-98899998999999999999974-689659999696689-89999999999956998987787


Q ss_pred             -----------CC---CCCEEEEEECCCCH--HHHHHHHHHHHHCC----CCCEEEEEEECCCCCCHHHHHHHHHHHHHH
Q ss_conf             -----------88---88239998477410--45789889885105----656079998526543113566765431121
Q gi|254780804|r   79 -----------LF---SKKKIILIENLSTE--KKVLDCLEEIIIKN----ICNHIIIIKSNEIKKNNTLRKIAEKFTSVL  138 (352)
Q Consensus        79 -----------lF---~~~klIii~~~~~~--k~~~~~l~~~~~~~----~~~~~li~~a~~l~k~~kl~k~~e~~~~~~  138 (352)
                                 .+   +..-+|++++....  +...+.|-.++..|    .....+|..+..++-...+-.-....-.-.
T Consensus       121 s~~~~~~~l~~~l~~~~~~~ivvLDEiD~L~~~~~~~vLY~L~r~~~~~~~~~~~vI~IsN~~~~~~~Ldprv~S~l~~~  200 (394)
T PRK00411        121 SFDELFDKIAEYLDERDRVLIVALDDINYLVEKEGNDVLYSLLRAHEEYPGARIGVIGISSDLTFLYILDPRVKSVFGPE  200 (394)
T ss_pred             CHHHHHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCHHHHHHHHCCCCCCCCCEEEEEEECCCCHHHHHHHHHHCCCCCE
T ss_conf             89999999999861669758999965540203665089999985402268873899999768717766407775027862


Q ss_pred             HCCCCCCCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---HC--CCCCCCCHHHHHHHHH
Q ss_conf             01466442001358898875430--25667567999996200123556899999975---10--3444348888877531
Q gi|254780804|r  139 AISCYPDNKIHLMDLIEESLLIG--QKSISKEAKQILLANLGGDRIASRNELQKLSS---YC--LEDILITEQHVKDIIC  211 (352)
Q Consensus       139 ~v~~~~~~~~~l~~~i~~~~~~~--g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~l---y~--~~~~~It~~dI~~~v~  211 (352)
                      .+.|.|=+..++...+..+++..  .-.++++++.+.+..++.+...+...|+=|..   .+  .+.+.||.++|.....
T Consensus       201 ~i~F~PY~~~qL~~IL~~R~~~af~~gv~~~~~i~~~A~~~a~~~GDaR~Aldllr~A~e~Ae~~g~~~Vt~~hV~~A~~  280 (394)
T PRK00411        201 EIVFPPYTADEIFDILKDRVEEGFYPGVVSDEVLELIADLTGREHGDARVAIDLLRRAGEIAEREGSRKVTEEDVRKAYE  280 (394)
T ss_pred             EEEECCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             89858999899999999999841455678978999999998550475899999999999999971899658999999999


Q ss_pred             CCCCCCHHH
Q ss_conf             012211146
Q gi|254780804|r  212 DTHVLYIEE  220 (352)
Q Consensus       212 ~~~~~~if~  220 (352)
                      ......+-+
T Consensus       281 ~~~~~~~~~  289 (394)
T PRK00411        281 KSEPVHLEE  289 (394)
T ss_pred             HHHCCHHHH
T ss_conf             860000889


No 82 
>pfam03215 Rad17 Rad17 cell cycle checkpoint protein.
Probab=95.31  E-value=0.23  Score=28.07  Aligned_cols=173  Identities=18%  Similarity=0.174  Sum_probs=102.6

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCC---C-------C--EEEEEEHHH------HHCCHHHHHHHHHC---CCC
Q ss_conf             8479995699658999999999973356667---7-------3--077620889------64189999998717---888
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHD---P-------F--SLVVLNALE------IQKNISTFWNEINS---TSL   79 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~---~-------~--~~~~~~~~e------~~~d~~~l~~~~~t---~sl   79 (352)
                      +.+-+++|+----+...++.+.+.++.+--+   +       +  ....+.+..      -...+..|.-...-   ++.
T Consensus        45 ~~iLlLtGPaG~GKTTTI~lLAkeLG~ei~EW~NP~~~~~~~~~~q~~d~~g~~~~~~~S~~~~F~eFLlr~~ky~sL~~  124 (490)
T pfam03215        45 QLILLLTGPSGCGKSTTVKVLSKELGIEIIEWSNPEYLHNPDNECQKPDFRGDCIVNSLSQMEQFREFLLRGARYGSLQG  124 (490)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHCCEEEEECCCCCCCCCCCHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCC
T ss_conf             31899879899889999999999759689981486545677502210121234576666377776788762233565445


Q ss_pred             C-CCCEEEEEECCCC-----HHHHHHHHHHHHHCCC-CCEEEEEEE-CCCCC-CH------HHHHH----HHHHHHHHHC
Q ss_conf             8-8823999847741-----0457898898851056-560799985-26543-11------35667----6543112101
Q gi|254780804|r   80 F-SKKKIILIENLST-----EKKVLDCLEEIIIKNI-CNHIIIIKS-NEIKK-NN------TLRKI----AEKFTSVLAI  140 (352)
Q Consensus        80 F-~~~klIii~~~~~-----~k~~~~~l~~~~~~~~-~~~~li~~a-~~l~k-~~------kl~k~----~e~~~~~~~v  140 (352)
                      - +.+|+|+|++...     .....+.|..|+.... .-.++|+.- ..+.- .+      ....+    +-.+..+..|
T Consensus       125 ~~~~kriILIEE~Pn~~~~d~~~fr~~L~~~L~s~~~~PlV~IiSEt~s~~g~~~~~~~~~ta~rLlg~eIl~hp~i~~I  204 (490)
T pfam03215       125 GGLKKKLILVEELPNQFYSDAEKFREVIREVLQSIWHLPLIFCLTECNSLEGDNNQDRFGIDAETIMTKDILIMPRIDTI  204 (490)
T ss_pred             CCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCCCCCCCCCHHHHHCCHHHHHCCCCCEE
T ss_conf             78873599996588744236699999999999708999879999704666677643323210786359888708896369


Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             466442001358898875430256---67567999996200123556899999975
Q gi|254780804|r  141 SCYPDNKIHLMDLIEESLLIGQKS---ISKEAKQILLANLGGDRIASRNELQKLSS  193 (352)
Q Consensus       141 ~~~~~~~~~l~~~i~~~~~~~g~~---i~~~a~~~L~~~~g~d~~~l~~EleKL~l  193 (352)
                      .|.|.....|.+.+...+.+++..   .....++.|++.++||.+.+.|-|+=.++
T Consensus       205 ~FNpIApT~M~KaL~~I~~kE~~~~~~~~~~~le~Ia~~S~GDIRsAInsLQF~~~  260 (490)
T pfam03215       205 TFNPIAPTFMKKALVRISVQEGKLKSPKSDSKLEVICQEAGGDLRSAINSLQFSSS  260 (490)
T ss_pred             EECCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCC
T ss_conf             86888788999999999998576556752038999998648729999999998626


No 83 
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=94.92  E-value=0.29  Score=27.33  Aligned_cols=133  Identities=14%  Similarity=0.107  Sum_probs=83.9

Q ss_pred             CCCCEEEEEECCCCH-HHHHHHHHHHHHC--CCCCEEEEEEECCCCCCHHHHHH-HHH--HHHHHHCCCCCCCCHHHHHH
Q ss_conf             888239998477410-4578988988510--56560799985265431135667-654--31121014664420013588
Q gi|254780804|r   80 FSKKKIILIENLSTE-KKVLDCLEEIIIK--NICNHIIIIKSNEIKKNNTLRKI-AEK--FTSVLAISCYPDNKIHLMDL  153 (352)
Q Consensus        80 F~~~klIii~~~~~~-k~~~~~l~~~~~~--~~~~~~li~~a~~l~k~~kl~k~-~e~--~~~~~~v~~~~~~~~~l~~~  153 (352)
                      =+.+-+++|+++... ....+.|..+..-  .....+-++..+.-+-..++..- ...  ......+...|.+..+...+
T Consensus       121 ~g~~~vliIDEAq~L~~~~Le~Lr~L~n~e~~~~~ll~iiL~GqpeL~~~L~~~~~~~l~qRI~~~~~L~pl~~eet~~Y  200 (269)
T TIGR03015       121 AGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGPLDREETREY  200 (269)
T ss_pred             CCCCEEEEEECHHHCCHHHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHCCCCHHHHHHCEEEEEEECCCCHHHHHHH
T ss_conf             69946999724221999999999999701358887048999578679998727402545550767998479998999999


Q ss_pred             HHHHHHHCCC----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HCCCCCCCCHHHHHHHHHC
Q ss_conf             9887543025----667567999996200123556899999975--1034443488888775310
Q gi|254780804|r  154 IEESLLIGQK----SISKEAKQILLANLGGDRIASRNELQKLSS--YCLEDILITEQHVKDIICD  212 (352)
Q Consensus       154 i~~~~~~~g~----~i~~~a~~~L~~~~g~d~~~l~~EleKL~l--y~~~~~~It~~dI~~~v~~  212 (352)
                      |+.+++..|.    -++++|++.+.+.++|..+.+.+=.++-.+  |..+.+.|+.+.|..++.+
T Consensus       201 I~~RL~~AG~~~~~~Ft~~A~~~I~~~S~G~PR~IN~Lc~~aLl~a~~~~~~~I~~~~v~~~~~e  265 (269)
T TIGR03015       201 IEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAE  265 (269)
T ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
T ss_conf             99999866999999859999999999869900899999999999999948886799999999997


No 84 
>pfam01637 Arch_ATPase Archaeal ATPase. This family contain a conserved P-loop motif that is involved in binding ATP. This family is almost exclusively found in archaebacteria and particularly in Methanococcus jannaschii that encodes sixteen members of this family.
Probab=94.79  E-value=0.32  Score=27.10  Aligned_cols=155  Identities=12%  Similarity=0.125  Sum_probs=88.7

Q ss_pred             CCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHH--HH--------------------------------CC
Q ss_conf             847999569965899999999997335666773077620889--64--------------------------------18
Q gi|254780804|r   21 HFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALE--IQ--------------------------------KN   66 (352)
Q Consensus        21 ~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e--~~--------------------------------~d   66 (352)
                      +.+.++||.-..-+...++++.+.....+   +....++..+  ..                                .+
T Consensus        20 ~~~ivi~G~RR~GKTsLi~~~~~~~~~~~---~~~i~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~   96 (223)
T pfam01637        20 YPIIVVYGPRRCGKTALLREFLEELRELG---YRVIYYDPLRREFEEKLDRFEEAKRLAEALGDALPKIGIAKSKLAFLS   96 (223)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHCCCCC---CEEEEEECHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
T ss_conf             71899986887879999999998633468---528999514443799999888889999998765123322211207889


Q ss_pred             HHHHHHHHHCCCCCCCCE-EEEEECCCCH------HHHHHHHHHHHHCC--CCCEEEEEEECCCCCCHHHHHHHHHH---
Q ss_conf             999999871788888823-9998477410------45789889885105--65607999852654311356676543---
Q gi|254780804|r   67 ISTFWNEINSTSLFSKKK-IILIENLSTE------KKVLDCLEEIIIKN--ICNHIIIIKSNEIKKNNTLRKIAEKF---  134 (352)
Q Consensus        67 ~~~l~~~~~t~slF~~~k-lIii~~~~~~------k~~~~~l~~~~~~~--~~~~~li~~a~~l~k~~kl~k~~e~~---  134 (352)
                      ++.++..+..    .+++ +|++++++..      +.....+.......  ..++.+|+++....   -+.+.+...   
T Consensus        97 l~~~~~~l~~----~~~~~iiviDEfq~l~~~~~~~~~~~~l~~~~d~~~~~~~~~~I~~GS~~~---~m~~~~~~~~pl  169 (223)
T pfam01637        97 LTLLFELLKR----KGKKIAIIIDEVQYAIGLNGAESYVKLLLNLIDYPPKEYHLIVVLCGSSEG---LTIELLDYKSPL  169 (223)
T ss_pred             HHHHHHHHHH----CCCCEEEEEECHHHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCHHH---HHHHHHCCCCCC
T ss_conf             9999999985----599659997016776402443059999999999752457758999727199---999986205653


Q ss_pred             -HHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             -112101466442001358898875430256675679999962001235568
Q gi|254780804|r  135 -TSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASR  185 (352)
Q Consensus       135 -~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~  185 (352)
                       +....+...|.+..+..+++++.+++.|..++++.+..+...+||....+.
T Consensus       170 ygR~~~i~l~p~~~~~~~efl~~~f~e~~~~~~~~~~~~iy~~~gG~P~yL~  221 (223)
T pfam01637       170 YGRHRWALLKPFDFETAWNFLREGFEELYEPGPKEEFEEVWRLLGGNPGYLE  221 (223)
T ss_pred             CCCCCEEEECCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCHHHHHH
T ss_conf             5750227726899899999999999984789998999999999698389984


No 85 
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=94.57  E-value=0.36  Score=26.77  Aligned_cols=161  Identities=16%  Similarity=0.176  Sum_probs=99.0

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEE-EEEECCCC------HHH
Q ss_conf             99956996589999999999733566677307762088964189999998717888888239-99847741------045
Q gi|254780804|r   24 FIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKI-ILIENLST------EKK   96 (352)
Q Consensus        24 yLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~kl-Iii~~~~~------~k~   96 (352)
                      +|+||.--.-+...++.+...+...+.   .++..+-+++. +.-.+++.+...|    .|. |.+++.+-      -|.
T Consensus        88 VLLwGaRGtGKSSLVKA~~~e~~~~gl---rLVEV~k~dl~-~Lp~l~~~Lr~~~----~kFIlFcDDLSFe~gd~~yK~  159 (287)
T COG2607          88 VLLWGARGTGKSSLVKALLNEYADEGL---RLVEVDKEDLA-TLPDLVELLRARP----EKFILFCDDLSFEEGDDAYKA  159 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCC---EEEEECHHHHH-HHHHHHHHHHCCC----CEEEEEECCCCCCCCCHHHHH
T ss_conf             677637777747999999999874177---07997688886-5799999996188----608999567777778138999


Q ss_pred             HHHHHHHHHHCCCCCEEEEEEECC---CC----CC--HH-----HHHHHHH----HHHHHHCCCCCCCCHHHHHHHHHHH
Q ss_conf             789889885105656079998526---54----31--13-----5667654----3112101466442001358898875
Q gi|254780804|r   97 VLDCLEEIIIKNICNHIIIIKSNE---IK----KN--NT-----LRKIAEK----FTSVLAISCYPDNKIHLMDLIEESL  158 (352)
Q Consensus        97 ~~~~l~~~~~~~~~~~~li~~a~~---l~----k~--~k-----l~k~~e~----~~~~~~v~~~~~~~~~l~~~i~~~~  158 (352)
                      ....|+--++..|.++++.-+++.   ++    .+  ++     --..-|+    ...+..+.|||.+..+.-..|..++
T Consensus       160 LKs~LeG~ve~rP~NVl~YATSNRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a  239 (287)
T COG2607         160 LKSALEGGVEGRPANVLFYATSNRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYA  239 (287)
T ss_pred             HHHHHCCCCCCCCCEEEEEEECCCCCCCCHHHHHCCCCCCCCCHHHHHHHHHCHHHHCCEEECCCCCCHHHHHHHHHHHH
T ss_conf             99985388556887079997158753362766427784023580677877625464234045036878899999999999


Q ss_pred             HHCCCCCCHHHHHH-----HHHHHHHHHHHHHHHHHHHH
Q ss_conf             43025667567999-----99620012355689999997
Q gi|254780804|r  159 LIGQKSISKEAKQI-----LLANLGGDRIASRNELQKLS  192 (352)
Q Consensus       159 ~~~g~~i~~~a~~~-----L~~~~g~d~~~l~~EleKL~  192 (352)
                      +..|+.++++.+..     =..+-|-+-+...|-+.-++
T Consensus       240 ~~~~l~~~~e~l~~eAl~WAt~rg~RSGR~A~QF~~~~~  278 (287)
T COG2607         240 KHFGLDISDEELHAEALQWATTRGGRSGRVAWQFIRDLA  278 (287)
T ss_pred             HHCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             985999887899999999998618984275999999998


No 86 
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=94.55  E-value=0.36  Score=26.73  Aligned_cols=209  Identities=14%  Similarity=0.119  Sum_probs=114.5

Q ss_pred             HHHHHHHHHHHHCCCCEEEEECCCHH----HHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHH----HHCC-
Q ss_conf             78875321001013847999569965----89999999999733566677307762088964189999998----7178-
Q gi|254780804|r    7 HKFIQKSTKNLFLSHFVFIFYGSDKG----LIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNE----INST-   77 (352)
Q Consensus         7 ~~~~~~~~~~~~~~~~iyLi~G~d~~----l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~----~~t~-   77 (352)
                      +.|++...++-=....+| +.|-.--    -+.+.++.+......+.-.+|..+.+.|-.+. +|...+..    +... 
T Consensus       280 ~~Fie~~i~q~GtG~cLY-ISGVPGTGKTATV~eVIr~L~~~~~~~~lp~F~fVEINGMkLt-~P~qaY~~L~e~Ltg~k  357 (650)
T PTZ00112        280 RTFLETGIKQGGTGQILY-ISGVPGTGKTATVYMVIKELQNKKLKGQLPWFNLFEINGVNLV-HPNAAYRVFYKKLFNKK  357 (650)
T ss_pred             HHHHHHHCCCCCCCCEEE-EECCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCEECC-CHHHHHHHHHHHHHCCC
T ss_conf             999986411688665699-9789999800369999999999997089998159997363779-87889999999984898


Q ss_pred             ------------CCCCCC---EEEEEECCCCH-HHHHHHHHHHHHCCCC-CEEEEE--EECCCCCCHHHHHHHHHHHHHH
Q ss_conf             ------------888882---39998477410-4578988988510565-607999--8526543113566765431121
Q gi|254780804|r   78 ------------SLFSKK---KIILIENLSTE-KKVLDCLEEIIIKNIC-NHIIII--KSNEIKKNNTLRKIAEKFTSVL  138 (352)
Q Consensus        78 ------------slF~~~---klIii~~~~~~-k~~~~~l~~~~~~~~~-~~~li~--~a~~l~k~~kl~k~~e~~~~~~  138 (352)
                                  -.|+.+   .+++++...-. .+..+.+-.++.+|.. +..||+  .|.-++-..++..-+...-...
T Consensus       358 ~~~~~~A~~lL~k~F~~~r~p~VlLvDELD~LvTkkQ~VlYNLFdWPT~~~SkLIVIaIANTMDLPERL~~RVsSRLGlt  437 (650)
T PTZ00112        358 PPNALNSYKELDKLFNNNRTPSILIVDEADYIVTKTQKVLFTLFDWPTKKNSKLILIIISNTMDLPYKMKPSCRSRLAFG  437 (650)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCEEEEECHHHHHHHCCCCEEEECCCCCCCCCCEEEEEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf             88678999999998268997189997157777636774577736688988870799998506786065666655522885


Q ss_pred             HCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH--HHHHCCCCCCCCHHHHHHHHHCCCCC
Q ss_conf             0146644200135889887543025667567999996200123556899999--97510344434888887753101221
Q gi|254780804|r  139 AISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQK--LSSYCLEDILITEQHVKDIICDTHVL  216 (352)
Q Consensus       139 ~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleK--L~ly~~~~~~It~~dI~~~v~~~~~~  216 (352)
                      -+.|.|=+..++.+.|..++...+ -++++|+++.+.++.+=...++..|+=  -+.=......|+..|+........+.
T Consensus       438 RltF~PYt~~QL~eII~sRL~~~~-~f~~dAIQl~ARKVAavSGDARRALdICRRAvE~~~~~ki~~~~i~~a~n~~~ns  516 (650)
T PTZ00112        438 RLVFSPYKYQQIEKVIKERLENCE-IIDHTALQLCARRVTNYSGDMRKALQICKLAFENKNGGKITPRDMTRASNMVLDS  516 (650)
T ss_pred             EECCCCCCHHHHHHHHHHHHCCCC-CCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCEEEHHHHHHHHHHHHCC
T ss_conf             004399899999999999862677-7887899999888875031489999999999973568734248999998888540


Q ss_pred             CH
Q ss_conf             11
Q gi|254780804|r  217 YI  218 (352)
Q Consensus       217 ~i  218 (352)
                      .+
T Consensus       517 ~~  518 (650)
T PTZ00112        517 PL  518 (650)
T ss_pred             HH
T ss_conf             88


No 87 
>KOG1970 consensus
Probab=94.25  E-value=0.42  Score=26.31  Aligned_cols=217  Identities=15%  Similarity=0.137  Sum_probs=118.5

Q ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCC----------------CCEEEEEEHHHHHCCHHHHHHHH---HC---
Q ss_conf             138479995699658999999999973356667----------------73077620889641899999987---17---
Q gi|254780804|r   19 LSHFVFIFYGSDKGLIFELINQFKKNISITYHD----------------PFSLVVLNALEIQKNISTFWNEI---NS---   76 (352)
Q Consensus        19 ~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~----------------~~~~~~~~~~e~~~d~~~l~~~~---~t---   76 (352)
                      +.+.|-|++|+----+...++.+.+.++...-+                ++.....+...+. -.+.+....   .+   
T Consensus       108 l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~Npi~~~~~~~~h~~t~~~~~~~~s~L~-~fesFler~~kyg~l~~  186 (634)
T KOG1970         108 LGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWSNPINLKEPENLHNETSFLMFPYQSQLA-VFESFLLRATKYGSLQM  186 (634)
T ss_pred             CCCEEEEEECCCCCCCHHHHHHHHHHHCCEEEEECCCCCCCCCCCCCCCCHHCCCCHHHHHH-HHHHHHHHHHHHCHHHH
T ss_conf             67607998579888713199999986480212304776656655545544001330366789-99989999876231653


Q ss_pred             --CCCCCCCEEEEEECCCC------HHHHHHHHHHHHHCCCCCEEEEEEECC----CCCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf             --88888823999847741------045789889885105656079998526----543113566765431121014664
Q gi|254780804|r   77 --TSLFSKKKIILIENLST------EKKVLDCLEEIIIKNICNHIIIIKSNE----IKKNNTLRKIAEKFTSVLAISCYP  144 (352)
Q Consensus        77 --~slF~~~klIii~~~~~------~k~~~~~l~~~~~~~~~~~~li~~a~~----l~k~~kl~k~~e~~~~~~~v~~~~  144 (352)
                        ..+-+++++|+|.+...      .....+.|..|...+---+++++.-..    ......+-+-+.....+..|.|.|
T Consensus       187 ~g~~~~~~~~liLveDLPn~~~~d~~~~f~evL~~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNP  266 (634)
T KOG1970         187 SGDDLRTDKKLILVEDLPNQFYRDDSETFREVLRLYVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNP  266 (634)
T ss_pred             CCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCHHHHCHHHHHHCCCCCEEEECC
T ss_conf             13333467507985026144400369999999999984577767999863535787634342426565335852476157


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC-------CCCHHHHHHHHH
Q ss_conf             4200135889887543025667------567999996200123556899999975103444-------348888877531
Q gi|254780804|r  145 DNKIHLMDLIEESLLIGQKSIS------KEAKQILLANLGGDRIASRNELQKLSSYCLEDI-------LITEQHVKDIIC  211 (352)
Q Consensus       145 ~~~~~l~~~i~~~~~~~g~~i~------~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~-------~It~~dI~~~v~  211 (352)
                      ....-|++.+...+..++...+      ...++.++...|||.+.+.+-|+==+ -.|...       .-..+++-....
T Consensus       267 Ia~T~MKK~L~ric~~e~~~~s~~k~~~~~~v~~i~~~s~GDIRsAInsLQlss-skg~~~~~~~ks~rs~~s~~~kg~~  345 (634)
T KOG1970         267 IAPTIMKKFLKRICRIEANKKSGIKVPDTAEVELICQGSGGDIRSAINSLQLSS-SKGENNLRPRKSGRSGKSDIGKGKS  345 (634)
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHC-CCCCCCCCCCCCCCCCCCEECCCCC
T ss_conf             767999999999999862666667675067999998752773999987753320-3576677754466556320002333


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             0122111467888764102369999999
Q gi|254780804|r  212 DTHVLYIEEIINATIQGKIYNAIMLADF  239 (352)
Q Consensus       212 ~~~~~~if~L~dai~~~~~~~a~~~l~~  239 (352)
                      ...+..-.+.+.+++.++  .++...+.
T Consensus       346 ~~~~s~~nq~i~~ig~~d--e~L~~f~a  371 (634)
T KOG1970         346 KRMESPENQELQSIGGRD--ESLFLFRA  371 (634)
T ss_pred             CCCCCCHHHHHHHHHCCH--HHHHHHHH
T ss_conf             221364678999860430--77899886


No 88 
>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional
Probab=92.62  E-value=0.77  Score=24.58  Aligned_cols=250  Identities=15%  Similarity=0.104  Sum_probs=118.2

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHH-------------CCCCCC--CCE
Q ss_conf             38479995699658999999999973356667730776208896418999999871-------------788888--823
Q gi|254780804|r   20 SHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEIN-------------STSLFS--KKK   84 (352)
Q Consensus        20 ~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~-------------t~slF~--~~k   84 (352)
                      ++.=+||.||.---++..++.|- ......+.+|-.+  ++..+  ..+.+-+++.             ...+|.  +.=
T Consensus       165 s~~~VLI~GEsGTGKe~~Ar~IH-~~S~r~~~pFv~v--nc~ai--~~~l~eseLFG~~kgaftga~~~~~G~~e~A~gG  239 (457)
T PRK11361        165 SQASVLISGESGTGKELIARAIH-YNSRRAKGPFIKV--NCAAL--PESLLESELFGHEKGAFTGAQTLRQGLFERANEG  239 (457)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHH-HHCCCCCCCEEEE--ECCCC--CHHHHHHHHHCCCCCCCCCCCCCCCCCHHHCCCC
T ss_conf             89958998899857899999999-8379889983876--47879--8577899971876678788531469861335998


Q ss_pred             EEEEECCCC-HHHHHHHHHHHHHC----C-------CCCEEEEEEEC-CCCC---CHHHHHHHHHHHHHHHCCCCCCC--
Q ss_conf             999847741-04578988988510----5-------65607999852-6543---11356676543112101466442--
Q gi|254780804|r   85 IILIENLST-EKKVLDCLEEIIIK----N-------ICNHIIIIKSN-EIKK---NNTLRKIAEKFTSVLAISCYPDN--  146 (352)
Q Consensus        85 lIii~~~~~-~k~~~~~l~~~~~~----~-------~~~~~li~~a~-~l~k---~~kl~k~~e~~~~~~~v~~~~~~--  146 (352)
                      -+++++.+. +......|..+++.    +       +-++-+|..+. ++..   ...++.-+-..-+++.+..+|+.  
T Consensus       240 TLfLdeI~~l~~~~Q~kLLr~L~~~~~~~~g~~~~~~~dvRiIaaT~~~L~~~v~~g~Fr~DLyyrL~~~~i~lPpLReR  319 (457)
T PRK11361        240 TLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLFYRLNVIHLILPPLRDR  319 (457)
T ss_pred             CEECCCHHHHHHHHHHHHHHHHHCCCEEECCCCCEEEECCEEEECCCCCHHHHHHCCCCHHHHHHHHCEEEEECCCHHHC
T ss_conf             26314664523999999999986492785699713665348996578785999875832388995302212517385458


Q ss_pred             CHHHHHHHHH----HHHHCCC---CCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCH
Q ss_conf             0013588988----7543025---6675679999962-001235568999999751034443488888775310122111
Q gi|254780804|r  147 KIHLMDLIEE----SLLIGQK---SISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYI  218 (352)
Q Consensus       147 ~~~l~~~i~~----~~~~~g~---~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~i  218 (352)
                      ..++..++..    +..++|.   .++++|++.|..+ -.||.+.+.|-++...+.+. ...|+.+|+...+........
T Consensus       320 ~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvREL~n~ierav~~~~-~~~i~~~~l~~~~~~~~~~~~  398 (457)
T PRK11361        320 REDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNS-GPIIFSEDLPPQIRQPVCNAG  398 (457)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCC-CCCCCHHHCCHHHHCCCCCCC
T ss_conf             7549999999999999974999898899999999569999799999999999998289-981566768486615556776


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             46788876410236999999985311000145899999999999999983025689899998608999976899999998
Q gi|254780804|r  219 EEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESL  298 (352)
Q Consensus       219 f~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~  298 (352)
                      -  .+....++                .+   +......|.+-+....+... +-+..++...++.+     +..+.+-+
T Consensus       399 ~--~~~~~~~~----------------~~---l~~~~~~~Er~~i~~aL~~~-~gn~~~aA~~LGis-----R~tLyrKl  451 (457)
T PRK11361        399 E--AKTAPVGE----------------RN---LKEEIKRVEKRIIMEVLEQQ-EGNRTRTALMLGIS-----RRALMYKL  451 (457)
T ss_pred             C--CCCCCCCC----------------CC---HHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHCCC-----HHHHHHHH
T ss_conf             4--55677666----------------78---99999999999999999982-99899999998989-----99999999


Q ss_pred             HCCC
Q ss_conf             6499
Q gi|254780804|r  299 RIWN  302 (352)
Q Consensus       299 ~~~s  302 (352)
                      ++|+
T Consensus       452 kk~g  455 (457)
T PRK11361        452 QEYG  455 (457)
T ss_pred             HHHC
T ss_conf             9858


No 89 
>pfam12213 Dpoe2NT DNA polymerases epsilon N terminal. This domain is found in eukaryotes, and is approximately 70 amino acids in length. The family is found in association with pfam04042. There is a single completely conserved residue F that may be functionally important. This domain is the N terminal domain of DNA polymerase epsilon subunit B. It forms a primarily alpha helical structure in which four helices are arranged in two hairpins with connecting loops containing beta strands which form a short parallel sheet. DNA polymerase epsilon is required in DNA replication for synthesis of the leading strand. This domain has close structural relation to AAA+ protein C terminal domains.
Probab=90.62  E-value=0.66  Score=24.99  Aligned_cols=62  Identities=13%  Similarity=0.089  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             01358898875430256675679999962001-2355689999997510344434888887753
Q gi|254780804|r  148 IHLMDLIEESLLIGQKSISKEAKQILLANLGG-DRIASRNELQKLSSYCLEDILITEQHVKDII  210 (352)
Q Consensus       148 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~-d~~~l~~EleKL~ly~~~~~~It~~dI~~~v  210 (352)
                      ..++.+|.+.|+-+|+.+.++|..||++.+.. +-.....-++|+.-... +.+++...|+..+
T Consensus         3 ~~lr~~i~~~Fkl~G~~Lr~eA~~yl~~~l~~~~~~er~~~l~kii~~v~-kQ~Lss~~Iek~~   65 (72)
T pfam12213         3 AALRRRVVSAFKLHGFSLRSEASKYLAEVLLSLGEPEREDWLEKIIEAVE-KQPLSSSMIERSV   65 (72)
T ss_pred             HHHHHHHHHHHHHHHHEECHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHH-CCCCCCHHHHHHH
T ss_conf             88999999887241030438899999998467998999999999999996-5888710513999


No 90 
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=87.81  E-value=2  Score=21.87  Aligned_cols=58  Identities=14%  Similarity=0.102  Sum_probs=48.8

Q ss_pred             HHHHHHHHHCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             889887543025-66756799999620012355689999997510344434888887753
Q gi|254780804|r  152 DLIEESLLIGQK-SISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDII  210 (352)
Q Consensus       152 ~~i~~~~~~~g~-~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v  210 (352)
                      .-|+..+...|+ +++++++..|++-+..-...+.||--|..- .+.+.++|.+||+..+
T Consensus         6 esik~iAes~Gi~~l~de~a~~La~dveyRlkei~q~A~Kfm~-hskR~~Lt~~DI~~AL   64 (65)
T smart00803        6 ETIKDVAESLGIGNLSDEAAKLLAEDVEYRIKEIVQEALKFMR-HSKRTTLTTSDIDSAL   64 (65)
T ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHCCCCCCHHHHHHHH
T ss_conf             8899999985988889999999999999999999999999999-7576757699999874


No 91 
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=85.68  E-value=1.9  Score=22.00  Aligned_cols=104  Identities=15%  Similarity=0.120  Sum_probs=52.5

Q ss_pred             HHHCCCCCCCCH---HHHHHHHHCCCCCCHHHHH------HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             751034443488---8887753101221114678------8876410236999999985311000145899999999999
Q gi|254780804|r  192 SSYCLEDILITE---QHVKDIICDTHVLYIEEII------NATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLE  262 (352)
Q Consensus       192 ~ly~~~~~~It~---~dI~~~v~~~~~~~if~L~------dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~  262 (352)
                      +++.+.-.+|+.   ++|+..|....+..--+++      |-+-.-| .+++..+++.+.....|+.|+++=.    -+.
T Consensus       258 sl~~~~~~eI~~evR~~vn~~V~~~ieeGkAElVpGVLFIDEvHmLD-IE~FsFlnrAlEse~aPIii~AtNR----G~~  332 (450)
T COG1224         258 SLFSGGTGEITDEVREEVNEKVKKWIEEGKAELVPGVLFIDEVHMLD-IECFSFLNRALESELAPIIILATNR----GMT  332 (450)
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEECCEEEEECHHHHH-HHHHHHHHHHHHCCCCCEEEEECCC----CEE
T ss_conf             56527766578899999999999998549578613428973213455-7899999987631467579997177----500


Q ss_pred             HHHHHHHCCCCCHHHHHHHHCCCCCHHHH--HHHHHHHHCCCHHHHHHHHHH
Q ss_conf             99998302568989999860899997689--999999864998999999999
Q gi|254780804|r  263 KIHIIKECSNISFEKIIQKTEKNIIPMKR--NILQESLRIWNKNLVRETLHK  312 (352)
Q Consensus       263 ~~~~~~~~~g~~~~~~~~~~~~p~~~~~k--~~~~~q~~~~s~~~l~~~l~~  312 (352)
                      .      ..|.+.      ..|+--|.+.  ..+.-..+.|+.++++.++.+
T Consensus       333 k------iRGTd~------~sPhGIP~DlLDRllII~t~py~~~EireIi~i  372 (450)
T COG1224         333 K------IRGTDI------ESPHGIPLDLLDRLLIISTRPYSREEIREIIRI  372 (450)
T ss_pred             E------ECCCCC------CCCCCCCHHHHHHEEEEECCCCCHHHHHHHHHH
T ss_conf             1------216677------688889876662256774477988999999997


No 92 
>TIGR02902 spore_lonB ATP-dependent protease LonB; InterPro: IPR014251   This entry represents LonB, a paralog of the ATP-dependent protease La (LonA, IPR004815 from INTERPRO). LonB proteins are unassigned peptidases belonging to the MEROPS peptidase family S16 (lon protease family, clan SJ) and are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore during sporulation, under control of sigmaF . The lonB gene, despite being located immediately upstream of lonA, was shown to be monocistronic. LonB appears to be involved in the post-translation control of sigmaH, but lonB mutation did not produce an obvious sporulation defect under the conditions tested . Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and these are excluded from this entry. .
Probab=85.37  E-value=2.1  Score=21.71  Aligned_cols=178  Identities=15%  Similarity=0.151  Sum_probs=100.9

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCCC----CCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCC----------------
Q ss_conf             999569965899999999997335666----773077620889641899999987178888882----------------
Q gi|254780804|r   24 FIFYGSDKGLIFELINQFKKNISITYH----DPFSLVVLNALEIQKNISTFWNEINSTSLFSKK----------------   83 (352)
Q Consensus        24 yLi~G~d~~l~~~~~~~l~k~~~~~~~----~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~----------------   83 (352)
                      +++||+.-=-+.-+++...+.+.....    ++-..+.+|++.+.+|..=+.|     ||-|.-                
T Consensus        89 VIiYGPPGVGKTAAARLVLeeAKk~~~SPFke~A~FVEiDATT~RFDERGIAD-----PLIGSVHDPIYQGAGplG~AGI  163 (532)
T TIGR02902        89 VIIYGPPGVGKTAAARLVLEEAKKNPASPFKEEAAFVEIDATTARFDERGIAD-----PLIGSVHDPIYQGAGPLGVAGI  163 (532)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCCCCCCCCCCCC-----CCCCCCCCCCCCCCCCCCCCCC
T ss_conf             89878869617899999999865087537898866898505103602146666-----5677615853337654578855


Q ss_pred             ---E----------EEEEECCCC-----HHHHHHHHHHHHHCCCCCEEEEEEEC-----CCCCCHHHHHHHHH-------
Q ss_conf             ---3----------999847741-----04578988988510565607999852-----65431135667654-------
Q gi|254780804|r   84 ---K----------IILIENLST-----EKKVLDCLEEIIIKNICNHIIIIKSN-----EIKKNNTLRKIAEK-------  133 (352)
Q Consensus        84 ---k----------lIii~~~~~-----~k~~~~~l~~~~~~~~~~~~li~~a~-----~l~k~~kl~k~~e~-------  133 (352)
                         |          ++.|+..+.     ..|.++.|++        --+++.|.     +-.-.+-++..|++       
T Consensus       164 PQPK~GAVT~AHGGvLFIDEIGELHP~~MNKLLKVLED--------RKVFLdSAYY~s~~pniP~hI~dIFqnGlPADFR  235 (532)
T TIGR02902       164 PQPKPGAVTKAHGGVLFIDEIGELHPVQMNKLLKVLED--------RKVFLDSAYYSSEDPNIPSHIRDIFQNGLPADFR  235 (532)
T ss_pred             CCCCCCCCCCCCCCEEEECCCCCCCHHHHHHHHHHHHC--------CCCHHHCCCCCCCCCCCCHHHHHHHCCCCCCCEE
T ss_conf             75877763202586551212466582435314113302--------2200001235877786542789972067873401


Q ss_pred             ----------------HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---H
Q ss_conf             ----------------311210146644200135889887543025667567999996200123556899999975---1
Q gi|254780804|r  134 ----------------FTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSS---Y  194 (352)
Q Consensus       134 ----------------~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~l---y  194 (352)
                                      -..|+.|=|.++...+++...++.+.+-|++|+++|++.+..+.. +-+..-|=++ |++   .
T Consensus       236 LiGATTR~PeEIpPAlRSRC~EIFFR~L~~EEi~~iAk~AaeKIg~~l~~~Al~~I~~Ya~-nGREAvN~~Q-LAaG~a~  313 (532)
T TIGR02902       236 LIGATTRNPEEIPPALRSRCVEIFFRPLLKEEIKEIAKNAAEKIGLNLEKEALDLIAKYAS-NGREAVNLVQ-LAAGIAL  313 (532)
T ss_pred             CCCCCCCCCCCCCHHHHCCCEEEEECCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHC-CCCHHHHHHH-HHHHHEE
T ss_conf             2133369877678346505226771688878999998765653046547547999998740-5406778999-9731401


Q ss_pred             CCCCCCCCHHHHHHHHHCCCCCC
Q ss_conf             03444348888877531012211
Q gi|254780804|r  195 CLEDILITEQHVKDIICDTHVLY  217 (352)
Q Consensus       195 ~~~~~~It~~dI~~~v~~~~~~~  217 (352)
                      .-+++.|+.+||+=++. +..++
T Consensus       314 ~E~Rk~I~~~DieWV~~-~G~y~  335 (532)
T TIGR02902       314 GENRKRILAEDIEWVIE-SGNYH  335 (532)
T ss_pred             CCCCCEECHHHHHHHHH-HCCCC
T ss_conf             28876120546445553-04787


No 93 
>PRK10365 transcriptional regulatory protein ZraR; Provisional
Probab=83.32  E-value=3.2  Score=20.46  Aligned_cols=186  Identities=14%  Similarity=0.113  Sum_probs=91.6

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHH-------------CCCCC--CCCE
Q ss_conf             38479995699658999999999973356667730776208896418999999871-------------78888--8823
Q gi|254780804|r   20 SHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEIN-------------STSLF--SKKK   84 (352)
Q Consensus        20 ~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~-------------t~slF--~~~k   84 (352)
                      ++.=+||+||.---++..++.| .......+.+|-.+  ++..+  ..+.+-+++.             ...+|  ++.-
T Consensus       161 s~~pVLI~GE~GTGK~~~Ar~I-H~~S~r~~~pfv~v--nC~~l--~~~l~eseLFG~~~gaftga~~~~~g~~~~A~gG  235 (441)
T PRK10365        161 SEATVLIHGDSGTGKELVARAI-HASSARSEKPLVTL--NCAAL--NESLLESELFGHEKGAFTGADKRREGRFVEADGG  235 (441)
T ss_pred             CCCCEEEECCCCHHHHHHHHHH-HHCCCCCCCCCEEE--ECCCC--CHHHHHHHHCCCCCCCCCCCCCCCCCCEEECCCC
T ss_conf             8994899899981099999999-96578778980798--78989--8455589861775568789653468987788998


Q ss_pred             EEEEECCCCH-HHHHHHHHHHHHC----C-------CCCEEEEEEEC-CCCC---CHHHHHHHHHHHHHHHCCCCCCC--
Q ss_conf             9998477410-4578988988510----5-------65607999852-6543---11356676543112101466442--
Q gi|254780804|r   85 IILIENLSTE-KKVLDCLEEIIIK----N-------ICNHIIIIKSN-EIKK---NNTLRKIAEKFTSVLAISCYPDN--  146 (352)
Q Consensus        85 lIii~~~~~~-k~~~~~l~~~~~~----~-------~~~~~li~~a~-~l~k---~~kl~k~~e~~~~~~~v~~~~~~--  146 (352)
                      .+++++.+.. -.....|..+++.    +       +-++-+|..+. ++..   ...++.-+-..-+...+..+|+.  
T Consensus       236 TLfLdeI~~l~~~~Q~kLl~~l~~~~~~~~g~~~~~~~d~RiIaat~~~l~~~v~~g~Fr~dLy~rL~~~~i~lPpLReR  315 (441)
T PRK10365        236 TLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAIEVPSLRQR  315 (441)
T ss_pred             EECCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEECCCEEEECCCCCHHHHHHCCCCHHHHHHHHCCHHCCCCCCCCC
T ss_conf             25502315299999999998777521000588734413637998378899999881982589998860111378260006


Q ss_pred             CHHHHHHHHHHH----HHCCC---CCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             001358898875----43025---6675679999962-00123556899999975103444348888877531
Q gi|254780804|r  147 KIHLMDLIEESL----LIGQK---SISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHVKDIIC  211 (352)
Q Consensus       147 ~~~l~~~i~~~~----~~~g~---~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~  211 (352)
                      ..++..++..++    .+.|.   .++++|++.|..+ -.||.+.+.|-++...+.+.+ ..|+.+++...+.
T Consensus       316 ~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvREL~n~iera~~~~~~-~~i~~~~l~~~~~  387 (441)
T PRK10365        316 REDIPLLAGHFLQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTG-EYISERELPLAIA  387 (441)
T ss_pred             CCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCC-CCCCHHHCCHHHC
T ss_conf             20099999999999999849998888999999997099998999999999999995789-8688465754330


No 94 
>pfam02969 TAF TATA box binding protein associated factor (TAF). TAF proteins adopt a histone-like fold.
Probab=82.50  E-value=3.4  Score=20.25  Aligned_cols=57  Identities=11%  Similarity=0.007  Sum_probs=47.8

Q ss_pred             HHHHHHHHCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             89887543025-66756799999620012355689999997510344434888887753
Q gi|254780804|r  153 LIEESLLIGQK-SISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDII  210 (352)
Q Consensus       153 ~i~~~~~~~g~-~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v  210 (352)
                      -|+..+...|+ +++++++..|++-+..-...+.||--|..-- +.+.+.|.+||+..+
T Consensus         8 sik~iAeS~Gi~~l~de~a~~La~dveyRl~eiiqeA~KFMrh-skR~~Ltt~Did~AL   65 (66)
T pfam02969         8 SMKVIAESLGITNLSDEAAALLAEDVEYRLKEIVQDAAKFMRH-SKRQKLTVADIDSAL   65 (66)
T ss_pred             HHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HCCCCCCHHHHHHHH
T ss_conf             8999999949888999999998999999999999999999998-675778799999874


No 95 
>KOG1942 consensus
Probab=82.45  E-value=2  Score=21.77  Aligned_cols=58  Identities=9%  Similarity=0.076  Sum_probs=34.6

Q ss_pred             CCCCCCCH---HHHHHHHHCCCCCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             34443488---888775310122111467888764102-----36999999985311000145899
Q gi|254780804|r  196 LEDILITE---QHVKDIICDTHVLYIEEIINATIQGKI-----YNAIMLADFFLASKMPSHALLHG  253 (352)
Q Consensus       196 ~~~~~It~---~dI~~~v~~~~~~~if~L~dai~~~~~-----~~a~~~l~~l~~~g~~~~~il~~  253 (352)
                      +.+..||.   .+|.++|....+..+-+|+--++.=|-     .+.+..+++.+.....|+.|+++
T Consensus       267 PkKTEITdkLR~eiNkvVn~Yid~GvAElvPGVLFIDEVhMLDiEcFTyL~kalES~iaPivifAs  332 (456)
T KOG1942         267 PKKTEITDKLRGEINKVVNKYIDQGVAELVPGVLFIDEVHMLDIECFTYLHKALESPIAPIVIFAS  332 (456)
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCHHHHCCCCEEEEEHHHHHHHHHHHHHHHHCCCCCCEEEEEC
T ss_conf             752246799999999999998862526536762686301324269999999986277875699962


No 96 
>CHL00195 ycf46 Ycf46; Provisional
Probab=81.01  E-value=3.9  Score=19.91  Aligned_cols=188  Identities=13%  Similarity=0.067  Sum_probs=107.2

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEE---H------H--HHHCCHHHHHHHHHCC
Q ss_conf             875321001013847999569965899999999997335666773077620---8------8--9641899999987178
Q gi|254780804|r    9 FIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLN---A------L--EIQKNISTFWNEINST   77 (352)
Q Consensus         9 ~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~---~------~--e~~~d~~~l~~~~~t~   77 (352)
                      |.+.+..-+...+++..+--.|+-.....+....+.....     .+...+   |      .  .-..|+...++.++..
T Consensus         3 f~~dL~~lIrAr~PlI~I~T~EE~R~~~ll~~~~~~~~~~-----~~~~W~~t~Gl~~~~~~~~~~~~~P~~aL~~I~~~   77 (491)
T CHL00195          3 FTDELKLLLKARYPIIYINTIEEERVEYIIRKAIKTSLNR-----SIYSWDFVDGYTNNPNDNGYAKRNPLQALEFIERL   77 (491)
T ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCC-----CEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHC
T ss_conf             6999999998499989991688999999999999862589-----51899815784169986566779989999999861


Q ss_pred             CCCCCCEEEEEECCCC---HHHHHHHHHHHHHC-CCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             8888823999847741---04578988988510-5656079998526543113566765431121014664420013588
Q gi|254780804|r   78 SLFSKKKIILIENLST---EKKVLDCLEEIIIK-NICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDL  153 (352)
Q Consensus        78 slF~~~klIii~~~~~---~k~~~~~l~~~~~~-~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~  153 (352)
                      + ....-+++++|...   .-.+...|.++... ......+|+.++.+.-..-+.+      .+..+.+.-++..++...
T Consensus        78 ~-~~~~~lfvLkDfh~fl~d~~i~R~Lrdla~~~~~~~~tlIlls~~~~lP~eL~~------~~~~l~~~LP~~~Ei~~~  150 (491)
T CHL00195         78 T-SETPTLFLLKDFNLFLNDISISRKLRNLSRILKLQSKTIIIIASELNIPKELKD------LITVLDFPLPNESEINKE  150 (491)
T ss_pred             C-CCCCEEEEEECCCHHHCCHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHH------CEEEEECCCCCHHHHHHH
T ss_conf             6-889839999368624328799999999999996479859999479989978872------257980489499999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             9887543025667567999996200-123556899999975103444348888877531
Q gi|254780804|r  154 IEESLLIGQKSISKEAKQILLANLG-GDRIASRNELQKLSSYCLEDILITEQHVKDIIC  211 (352)
Q Consensus       154 i~~~~~~~g~~i~~~a~~~L~~~~g-~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~  211 (352)
                      +.......+..++++..+.|+..+. -....+.+.+.+...   .++.|+.+||..+..
T Consensus       151 l~~~~~~~~~~~~~~~~~~l~~a~~GLt~~e~~~~~~~ai~---~~g~i~~~~i~~i~~  206 (491)
T CHL00195        151 LKRLINSLNIPIDSELLENLTRACQGLSLERIRRVLAKIIA---TYKTIDEESIQIILE  206 (491)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHH---HCCCCCHHHHHHHHH
T ss_conf             99999852888998999999999669999999999999998---559988332899999


No 97 
>PRK10923 glnG nitrogen regulation protein NR(I); Provisional
Probab=80.49  E-value=4  Score=19.79  Aligned_cols=254  Identities=11%  Similarity=0.049  Sum_probs=118.1

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHH---CCCCCCC------------CE
Q ss_conf             38479995699658999999999973356667730776208896418999999871---7888888------------23
Q gi|254780804|r   20 SHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEIN---STSLFSK------------KK   84 (352)
Q Consensus        20 ~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~---t~slF~~------------~k   84 (352)
                      .+.=+||+||.---++..++.|- ......+.+|-.+...+  +  ..+.+-+++.   .-+|-|.            .=
T Consensus       160 ~~~pVLI~GE~GTGK~~~Ar~IH-~~S~r~~~pfi~vnC~~--~--~~~~~e~eLFG~~~gaf~ga~~~~~g~~e~a~~G  234 (469)
T PRK10923        160 SSISVLINGESGTGKELVAHALH-RHSPRAKAPFIALNMAA--I--PKDLIESELFGHEKGAFTGANTIRQGRFEQADGG  234 (469)
T ss_pred             CCCCEEEECCCCCCHHHHHHHHH-HCCCCCCCCCEEEECCC--C--CHHHHHHHHHCCCCCCCCCCCCCCCCCHHHCCCC
T ss_conf             89978998989826999999999-74887799957876788--9--9778999970876678788642458736643899


Q ss_pred             EEEEECCCC-HHHHHHHHHHHHHCC-----------CCCEEEEEEEC-CCC---CCHHHHHHHHHHHHHHHCCCCCCC--
Q ss_conf             999847741-045789889885105-----------65607999852-654---311356676543112101466442--
Q gi|254780804|r   85 IILIENLST-EKKVLDCLEEIIIKN-----------ICNHIIIIKSN-EIK---KNNTLRKIAEKFTSVLAISCYPDN--  146 (352)
Q Consensus        85 lIii~~~~~-~k~~~~~l~~~~~~~-----------~~~~~li~~a~-~l~---k~~kl~k~~e~~~~~~~v~~~~~~--  146 (352)
                      .+++++... +......|..+++..           +.++-+|..+. ++.   ....++.-+-..-....+..+|+.  
T Consensus       235 TLfLdeI~~L~~~~Q~kLl~~L~~~~~~~~g~~~~~~~d~RiIaat~~~L~~~v~~g~Fr~dLyyrL~~~~I~lPpLReR  314 (469)
T PRK10923        235 TLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDLFHRLNVIRVHLPPLRER  314 (469)
T ss_pred             CEEHHHHHHCCHHHHHHHHHHHHCCCEEECCCCCEEEECCEEEEECCCCHHHHHHHCCHHHHHHHHHHHHCCCCCCHHHC
T ss_conf             26566366489999999999985593785799851221437997078799998660817799998644240158465446


Q ss_pred             CHHHHHHHHH----HHHHCCC---CCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCH
Q ss_conf             0013588988----7543025---6675679999962-001235568999999751034443488888775310122111
Q gi|254780804|r  147 KIHLMDLIEE----SLLIGQK---SISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTHVLYI  218 (352)
Q Consensus       147 ~~~l~~~i~~----~~~~~g~---~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~i  218 (352)
                      ..++..++..    ..++.|.   .++++|.+.|..+ -.||.+.+.|-++.+.+.+.+ ..|+.+|+...+......+.
T Consensus       315 ~eDI~~L~~~fl~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvrEL~n~ier~~~~~~~-~~i~~~dl~~~l~~~~~~~~  393 (469)
T PRK10923        315 REDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMAAG-QEVLIQDLPGELFESTVPDS  393 (469)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCC-CCCCHHHCCHHHHHCCCCCC
T ss_conf             53499999999999999859997878999999997499998799999999999985799-82547757298863337776


Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCC
Q ss_conf             46788876410236999-99998531100014589999999999999998302568989999860899
Q gi|254780804|r  219 EEIINATIQGKIYNAIM-LADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKN  285 (352)
Q Consensus       219 f~L~dai~~~~~~~a~~-~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p  285 (352)
                         ......+.....+. ..+..+..+.+.  ++..-...|.+-+....+... +-+..++++.++.+
T Consensus       394 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~~~l~~~Er~~I~~aL~~~-~gn~~~aA~~LGis  455 (469)
T PRK10923        394 ---TSQMQPDSWATLLAQWADRALRSGHQN--LLSEAQPELERTLLTTALRHT-QGHKQEAARLLGWG  455 (469)
T ss_pred             ---CCCCCCCCHHHHHHHHHHHHHCCCCCH--HHHHHHHHHHHHHHHHHHHHH-CCCHHHHHHHHCCC
T ss_conf             ---545577403444211001111134201--589999999999999999990-99899999998989


No 98 
>KOG0743 consensus
Probab=77.53  E-value=4.9  Score=19.21  Aligned_cols=26  Identities=8%  Similarity=0.056  Sum_probs=14.0

Q ss_pred             HHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             99999975103444348888877531
Q gi|254780804|r  186 NELQKLSSYCLEDILITEQHVKDIIC  211 (352)
Q Consensus       186 ~EleKL~ly~~~~~~It~~dI~~~v~  211 (352)
                      .||.+|.+-..++..|-.|||+..+.
T Consensus       275 ~dLr~LL~~t~~kSIivIEDIDcs~~  300 (457)
T KOG0743         275 SDLRHLLLATPNKSILLIEDIDCSFD  300 (457)
T ss_pred             HHHHHHHHHCCCCCEEEEEECCCCCC
T ss_conf             89999997289971899961243230


No 99 
>TIGR01752 flav_long flavodoxin; InterPro: IPR010086   Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They function as electron transfer agents in a variety of microbial metabolic processes, including nitrogen fixation by nitrogenase , sulphite reduction , and light-dependent NADP+ reduction during photosynthesis . This entry describes the long chain type, typical for nitrogen fixation but associated with pyruvate formate-lyase activation and cobalamin-dependent methionine synthase activity in Escherichia coli .; GO: 0010181 FMN binding, 0006118 electron transport.
Probab=75.84  E-value=3.6  Score=20.15  Aligned_cols=132  Identities=16%  Similarity=0.185  Sum_probs=78.0

Q ss_pred             EEEEECCCHHHHHHHHHHHHHHHC-CCCCCCCEEE------------------EEEHHHHH--------CCHHHHHHHHH
Q ss_conf             799956996589999999999733-5666773077------------------62088964--------18999999871
Q gi|254780804|r   23 VFIFYGSDKGLIFELINQFKKNIS-ITYHDPFSLV------------------VLNALEIQ--------KNISTFWNEIN   75 (352)
Q Consensus        23 iyLi~G~d~~l~~~~~~~l~k~~~-~~~~~~~~~~------------------~~~~~e~~--------~d~~~l~~~~~   75 (352)
                      +=+|||.+.+-=+..++.|.+.++ .+..|.||+.                  ++...|+.        .||+.++..+.
T Consensus         2 iGifyGt~TG~T~~iAe~I~~~lG~~~~~d~~ni~~~~~~~~~~Y~~LIlGtPTw~~GeLqGleaGCes~dW~~~~~~L~   81 (176)
T TIGR01752         2 IGIFYGTDTGNTEGIAEKIAKELGKESDVDVFNIAKASLEDLEAYDILILGTPTWGVGELQGLEAGCESEDWEEFLSDLE   81 (176)
T ss_pred             EEEEEECCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             57898458760789999999981888662101323124686634870587447666776666544677421677765442


Q ss_pred             CCCCCCCCEEEEEECCCCHH----HHHHHHHHHHHC-CCCCEEEEEEE----CCCCCCHHHHHHHHHHHH-HHHCC---C
Q ss_conf             78888882399984774104----578988988510-56560799985----265431135667654311-21014---6
Q gi|254780804|r   76 STSLFSKKKIILIENLSTEK----KVLDCLEEIIIK-NICNHIIIIKS----NEIKKNNTLRKIAEKFTS-VLAIS---C  142 (352)
Q Consensus        76 t~slF~~~klIii~~~~~~k----~~~~~l~~~~~~-~~~~~~li~~a----~~l~k~~kl~k~~e~~~~-~~~v~---~  142 (352)
                      ..+|=|  |+|=+-..++..    ...+.+-.+.++ .+...-+|=..    ..++.++.+   .+..+. +.++.   =
T Consensus        82 ~~dl~G--K~VAlfGlGDQ~~Ysd~F~dgmg~L~d~~~~~Ga~~VG~wPtdGY~F~aSkA~---~~gd~FVGLAlDeDNQ  156 (176)
T TIGR01752        82 ELDLKG--KTVALFGLGDQEGYSDTFCDGMGILYDKIKARGAKVVGFWPTDGYEFEASKAV---RDGDKFVGLALDEDNQ  156 (176)
T ss_pred             HCCCCC--CEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECCCCCCEECCCCCCC---CCCCEEEEEEECCCCC
T ss_conf             023588--76899725884611066787788999998515880775146995001566430---0687158872154377


Q ss_pred             CCCCCHHHHHHHHHHHH
Q ss_conf             64420013588988754
Q gi|254780804|r  143 YPDNKIHLMDLIEESLL  159 (352)
Q Consensus       143 ~~~~~~~l~~~i~~~~~  159 (352)
                      +.+++..+.+||.+.-.
T Consensus       157 ~dLT~~RI~~Wv~qIk~  173 (176)
T TIGR01752       157 PDLTEERIEKWVEQIKP  173 (176)
T ss_pred             HHHHHHHHHHHHHHHHH
T ss_conf             42318999999999876


No 100
>pfam08542 Rep_fac_C Replication factor C. This family includes several subunits of DNA replication factor C.
Probab=73.46  E-value=6.3  Score=18.52  Aligned_cols=75  Identities=13%  Similarity=0.098  Sum_probs=46.6

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHH-HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHH
Q ss_conf             2111467888764102369999999-853110001458999999999999999830256898999986089999768999
Q gi|254780804|r  215 VLYIEEIINATIQGKIYNAIMLADF-FLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNI  293 (352)
Q Consensus       215 ~~~if~L~dai~~~~~~~a~~~l~~-l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~  293 (352)
                      ...+-++++++..|+..+|...+++ +...|.++.-|+..+.+.+..+                                
T Consensus         5 p~~I~~il~~~~~~~f~~a~~~i~~~~~~~G~s~~Dii~~l~~~i~~~--------------------------------   52 (90)
T pfam08542         5 PEDIKEILESCLNGDFEEAYKTLRELLIEKGYSAEDIITQLHRVLKTL--------------------------------   52 (90)
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHC--------------------------------
T ss_conf             899999999998099999999999999985999999999999999873--------------------------------


Q ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHH
Q ss_conf             99998649989999999999999999532899989
Q gi|254780804|r  294 LQESLRIWNKNLVRETLHKIDHRIHLARKKKYLEK  328 (352)
Q Consensus       294 ~~~q~~~~s~~~l~~~l~~L~~~d~~~K~~~~~~~  328 (352)
                            .|+.....+++..|.++|..+-. |.++.
T Consensus        53 ------~~~~~~k~~il~~la~~e~rL~~-G~~e~   80 (90)
T pfam08542        53 ------DIPESLKLELLKELGEIEYRLSD-GASEY   80 (90)
T ss_pred             ------CCCHHHHHHHHHHHHHHHHHHHC-CCCHH
T ss_conf             ------89999999999999999999982-79779


No 101
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=73.16  E-value=6.4  Score=18.48  Aligned_cols=176  Identities=14%  Similarity=0.185  Sum_probs=102.4

Q ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHH
Q ss_conf             1384799956996589999999999733566677307762088964189999998717888888239998477410-457
Q gi|254780804|r   19 LSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLSTE-KKV   97 (352)
Q Consensus        19 ~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~   97 (352)
                      +-|  .||||+.-.-+-..+..+.+....      ++..-.|.-+ .-+..+..-+.   -..+.-+++|+...-. +..
T Consensus        51 ldH--~Ll~GPPGlGKTTLA~iiA~E~~~------~~~~tsGP~l-ek~~DL~~iLt---~l~~~dvLFIDEIHRl~~~v  118 (328)
T PRK00080         51 LDH--VLLYGPPGLGKTTLANIIANEMGV------NIRITSGPAL-EKAGDLAALLT---NLEEGDVLFIDEIHRLSPVV  118 (328)
T ss_pred             CCC--EEEECCCCCCHHHHHHHHHHHHCC------CCEECCCCCC-CCHHHHHHHHH---HCCCCCEEEEHHHHHCCHHH
T ss_conf             880--576588998899999999998688------8156245001-67478999996---08878767650653248889


Q ss_pred             HHHHHHHHHCC------------------CCCEEEEEEECCCC-CCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHH
Q ss_conf             89889885105------------------65607999852654-311356676543112101466442001358898875
Q gi|254780804|r   98 LDCLEEIIIKN------------------ICNHIIIIKSNEIK-KNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESL  158 (352)
Q Consensus        98 ~~~l~~~~~~~------------------~~~~~li~~a~~l~-k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~  158 (352)
                      .+.|-..+++-                  .+...||--..... -+++++.=   -....-+.+|.  ..++.+.|...+
T Consensus       119 EE~LY~AMEDf~iDi~iG~g~~Ar~~~i~L~pFTLIGATTr~g~Ls~PLrdR---FGi~~~l~~Y~--~eeL~~Ii~rsa  193 (328)
T PRK00080        119 EEILYPAMEDFRLDIMIGKGPAARSIRLDLPPFTLIGATTRAGLLTSPLRDR---FGIVQRLEFYT--VEELEKIVKRSA  193 (328)
T ss_pred             HHHHHHHHHHCEEEEEECCCCCCEEEECCCCCEEEEECCCCCCCCCHHHHHH---CCCEEEECCCC--HHHHHHHHHHHH
T ss_conf             9885798775234578647865324555899834740136766577678975---79336634589--999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCHHHHHHHHH
Q ss_conf             4302566756799999620012355689999997510--3444348888877531
Q gi|254780804|r  159 LIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYC--LEDILITEQHVKDIIC  211 (352)
Q Consensus       159 ~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~--~~~~~It~~dI~~~v~  211 (352)
                      +..|+.|+++++..++.++-+-.+...+=|...--|+  .+.+.|+.+.+...+.
T Consensus       194 ~~l~i~i~~~~~~eIA~rSRGTPRiAnrLLrRvrDfa~v~~~~~I~~~~~~~aL~  248 (328)
T PRK00080        194 RILGIEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGIITREIADKALD  248 (328)
T ss_pred             HHHCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHH
T ss_conf             9839887899999999863898399999999999999983799659999999999


No 102
>pfam06068 TIP49 TIP49 C-terminus. This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear
Probab=72.51  E-value=5.8  Score=18.77  Aligned_cols=111  Identities=12%  Similarity=0.073  Sum_probs=65.7

Q ss_pred             HHHHHCCCCCCCCHH---HHHHHHHCCCCCCHHHHHHHH------HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             997510344434888---887753101221114678887------64102369999999853110001458999999999
Q gi|254780804|r  190 KLSSYCLEDILITEQ---HVKDIICDTHVLYIEEIINAT------IQGKIYNAIMLADFFLASKMPSHALLHGFLQKFQL  260 (352)
Q Consensus       190 KL~ly~~~~~~It~~---dI~~~v~~~~~~~if~L~dai------~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~  260 (352)
                      -++++.+++++||.+   +|++.|....+...-+++--+      -.-| .+++..|++.+.....|+.|+++=..    
T Consensus       240 ~~slf~~~~~EIt~elR~eInk~V~~~i~eG~AElvpGVLFIDEvHMLD-iEcFsfLnralEs~laPivI~ATNRG----  314 (395)
T pfam06068       240 ILSLFSPKKGEITSELREEINKKVNKWIEEGKAEIVPGVLFIDEVHMLD-IECFSFLNRALESELAPIVILATNRG----  314 (395)
T ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHHHHHCCCEEEECCCEEEECCHHCC-HHHHHHHHHHHCCCCCCEEEEEECCC----
T ss_conf             6764179876069999999999999998648679842746885000000-58998887765056787699984465----


Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHCCCCCHHHH--HHHHHHHHCCCHHHHHHHHHHHHHHH
Q ss_conf             9999998302568989999860899997689--99999986499899999999999999
Q gi|254780804|r  261 LEKIHIIKECSNISFEKIIQKTEKNIIPMKR--NILQESLRIWNKNLVRETLHKIDHRI  317 (352)
Q Consensus       261 L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k--~~~~~q~~~~s~~~l~~~l~~L~~~d  317 (352)
                      +..      ..|.+.      ..|+-.|.+.  ..+.-...-|+.+++++++..=.+.|
T Consensus       315 ~~~------IRGTd~------~sPHGiP~DlLDRllII~T~py~~~ei~~Ii~iRa~~E  361 (395)
T pfam06068       315 ICT------IRGTDI------ISPHGIPLDLLDRLLIITTEPYTREEIKQILEIRAQEE  361 (395)
T ss_pred             CEE------ECCCCC------CCCCCCCHHHHHHEEEEECCCCCHHHHHHHHHHHHHHH
T ss_conf             203------525677------58889987777302588568899899999999877760


No 103
>KOG1968 consensus
Probab=70.94  E-value=7.2  Score=18.15  Aligned_cols=188  Identities=14%  Similarity=0.089  Sum_probs=96.9

Q ss_pred             EEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCC---HHHHHHHHHCCCCCCCC------------E-EEEE
Q ss_conf             995699658999999999973356667730776208896418---99999987178888882------------3-9998
Q gi|254780804|r   25 IFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKN---ISTFWNEINSTSLFSKK------------K-IILI   88 (352)
Q Consensus        25 Li~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d---~~~l~~~~~t~slF~~~------------k-lIii   88 (352)
                      ++.|+----..-++....+.++      |.+..++..+....   .+.+.+...+.++++.+            . +|++
T Consensus       361 l~~G~pGigKT~~~h~~~k~~g------~~v~E~Nas~~RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~  434 (871)
T KOG1968         361 LLSGPPGIGKTTAAHKAAKELG------FKVVEKNASDVRSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILM  434 (871)
T ss_pred             HHCCCCCCCCHHHHHHHHHHCC------CCEEECCCCCCCCCCHHHHHHHCCCCCCCHHHHHCCCCCCCCCCCCEEEEEE
T ss_conf             7317887772056766301206------5401047543344227776640244664000111111330004666069997


Q ss_pred             ECCCC----HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             47741----04578988988510565607999852654311356676543112101466442001358898875430256
Q gi|254780804|r   89 ENLST----EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIGQKS  164 (352)
Q Consensus        89 ~~~~~----~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~  164 (352)
                      .+...    .......+..++.+..--+++++.--++.+...+    ..  .+..+.|..++...+...|...+...++.
T Consensus       435 devD~~~~~dRg~v~~l~~l~~ks~~Piv~~cndr~~p~sr~~----~~--~~~~l~f~kP~~~~i~~ri~si~~se~~k  508 (871)
T KOG1968         435 DEVDGMFGEDRGGVSKLSSLCKKSSRPLVCTCNDRNLPKSRAL----SR--ACSDLRFSKPSSELIRSRIMSICKSEGIK  508 (871)
T ss_pred             ECCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCH----HH--HCCEEEECCCCHHHHHHHHHHHHCCCCEE
T ss_conf             4255442000136999999998635776887337777665202----23--20023404885777776665330246424


Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH---CCCCCCHHHHHHHHHH
Q ss_conf             67567999996200123556899999975103444348888877531---0122111467888764
Q gi|254780804|r  165 ISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIIC---DTHVLYIEEIINATIQ  227 (352)
Q Consensus       165 i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~---~~~~~~if~L~dai~~  227 (352)
                      |+++.++.++...|+|++...+-+.=.++-.   ......+....+.   .......|+...-++.
T Consensus       509 i~~~~l~~~s~~~~~DiR~~i~~lq~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~L~  571 (871)
T KOG1968         509 ISDDVLEEISKLSGGDIRQIIMQLQFWSLSK---PAELPKKKGTPIKTSKKNITVKDFDAAEGLLD  571 (871)
T ss_pred             CCCHHHHHHHHHCCCCHHHHHHHHHHHHCCC---HHHHCCCCCCCCCCCCCCCCCCHHHHHHHHCC
T ss_conf             1727889998750647999998776442046---65421235763235344564330477750123


No 104
>CHL00181 cbbX CbbX; Provisional
Probab=69.49  E-value=7.7  Score=17.95  Aligned_cols=159  Identities=11%  Similarity=0.113  Sum_probs=86.9

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCC-CCCCEEEEEEHHHHHCC--------HHHHHHHHHCCCCCCCCEEEEEECCC--
Q ss_conf             99956996589999999999733566-67730776208896418--------99999987178888882399984774--
Q gi|254780804|r   24 FIFYGSDKGLIFELINQFKKNISITY-HDPFSLVVLNALEIQKN--------ISTFWNEINSTSLFSKKKIILIENLS--   92 (352)
Q Consensus        24 yLi~G~d~~l~~~~~~~l~k~~~~~~-~~~~~~~~~~~~e~~~d--------~~~l~~~~~t~slF~~~klIii~~~~--   92 (352)
                      .+|.|+.---+-..++.+.+.+..-+ -..-.++..+..++...        ...+++.    .+   ..+++|+.+-  
T Consensus        62 ~vF~GnPGTGKTTVARl~a~il~~lG~L~~g~vve~~r~dLvg~yvG~Ta~kt~~~i~~----a~---GGVLfIDEAY~L  134 (287)
T CHL00181         62 MSFTGSPGTGKTTVALKMADILYRLGYIKKGHLITVTRDDLVGQYIGHTAPKTKEVLKK----AM---GGVLFIDEAYYL  134 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECHHHHCCCCCCCCHHHHHHHHHH----CC---CCEEEEECHHHH
T ss_conf             88878998679999999999999869955895899535884163535216999999996----45---987998244653


Q ss_pred             ---C-----HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-----HHHHCCCCCCCCHHHHHHHHHHHH
Q ss_conf             ---1-----045789889885105656079998526543113566765431-----121014664420013588988754
Q gi|254780804|r   93 ---T-----EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFT-----SVLAISCYPDNKIHLMDLIEESLL  159 (352)
Q Consensus        93 ---~-----~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~-----~~~~v~~~~~~~~~l~~~i~~~~~  159 (352)
                         +     .+...+.|...++++.++.++ +.++.-+..   ..+++...     ....+.|..-+..++.......+.
T Consensus       135 ~~~~~~~dfg~eaidtLl~~me~~~~~lvv-I~AGY~~eM---~~fl~~NpGL~sRf~~~i~F~dYt~~EL~~I~~~~~~  210 (287)
T CHL00181        135 YKPDNERDYGAEAIEILLQVMENQRDDLVV-IFAGYKDRM---DKFYESNPGLSSRVANHVDFPDYTPEELLQIAKMMLE  210 (287)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCCEEE-EEECCHHHH---HHHHHHCCCHHHHCCCEEECCCCCHHHHHHHHHHHHH
T ss_conf             578899983799999999998707998899-984678999---9999859047876887237798599999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHH--------HHHHHHHHHHHHHHH
Q ss_conf             3025667567999996200--------123556899999975
Q gi|254780804|r  160 IGQKSISKEAKQILLANLG--------GDRIASRNELQKLSS  193 (352)
Q Consensus       160 ~~g~~i~~~a~~~L~~~~g--------~d~~~l~~EleKL~l  193 (352)
                      +.+..++++|...+.+.+.        +|-+.+.|-+|+...
T Consensus       211 ~~~~~l~~~a~~~l~~~~~~~~~~~~FGNaR~vrnl~e~a~~  252 (287)
T CHL00181        211 EQQYQLTPEAEKVLLDYIKRRMEQPLFANARSVRNAIDRARM  252 (287)
T ss_pred             HCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
T ss_conf             869825879999999999985089998748999999999999


No 105
>TIGR01817 nifA Nif-specific regulatory protein; InterPro: IPR010113   This entry represents NifA, a DNA-binding regulatory protein for nitrogen fixation. Not included in this group are: the homologue in Aquifex aeolicus (which lacks nitrogenase), transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.   In diazotrophic proteobacteria, the sigma54-dependent activator NifA activates transcription of the nif (nitrogen fixation) genes by a conserved mechanism common to members of the enhancer binding protein family. Although NifA proteins have similar domain structures, both transcriptional regulation of nifA expression and posttranslational regulation of NifA activity by oxygen and fixed nitrogen vary significantly from one organism to another. In Klebsiella pneumoniae and Azotobacter vinelandii, nifA is co-ordinately transcribed with a second gene, nifL, whose product inhibits NifA activity in response to oxygen and fixed nitrogen .; GO: 0003677 DNA binding, 0016563 transcription activator activity, 0009399 nitrogen fixation.
Probab=69.45  E-value=6.2  Score=18.58  Aligned_cols=74  Identities=16%  Similarity=0.095  Sum_probs=52.9

Q ss_pred             HHHCCCCCCCC--HHHHHHHHHHHHH------CC-CCCCHHHHHHHHH-HHHHHHHHHHHHHHHHHHHCCCCCCCCHHHH
Q ss_conf             21014664420--0135889887543------02-5667567999996-2001235568999999751034443488888
Q gi|254780804|r  137 VLAISCYPDNK--IHLMDLIEESLLI------GQ-KSISKEAKQILLA-NLGGDRIASRNELQKLSSYCLEDILITEQHV  206 (352)
Q Consensus       137 ~~~v~~~~~~~--~~l~~~i~~~~~~------~g-~~i~~~a~~~L~~-~~g~d~~~l~~EleKL~ly~~~~~~It~~dI  206 (352)
                      ++-+..+|+.+  .|++...+.++.+      .. +.+++.|++.|.. +-.||-+.|.|=|+.=+..+. ++.||.+|+
T Consensus       377 VvPl~lPPLRER~~DIP~LA~~fL~kf~~en~R~mL~~~~~Ai~~Lm~c~wPGNVRELENC~eRtAtLs~-~~~It~~df  455 (574)
T TIGR01817       377 VVPLILPPLRERREDIPLLAEAFLEKFNRENGRPMLTLSPSAIRVLMSCKWPGNVRELENCVERTATLSR-SGTITRSDF  455 (574)
T ss_pred             HHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEECHHHHHHHHCCCCCCCCEEHHHHHHHHHHHCC-CCCCCCCEE
T ss_conf             2234078777873116899999999876651872032267899897517899974004437877875416-885164236


Q ss_pred             HHHHH
Q ss_conf             77531
Q gi|254780804|r  207 KDIIC  211 (352)
Q Consensus       207 ~~~v~  211 (352)
                      .=--.
T Consensus       456 ~c~~~  460 (574)
T TIGR01817       456 SCQSG  460 (574)
T ss_pred             EECCC
T ss_conf             64278


No 106
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=68.56  E-value=8  Score=17.82  Aligned_cols=53  Identities=11%  Similarity=-0.013  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHH----HHCCCCCCCCHHHHHHHH----HHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             356676543112----101466442001358898----87543025667567999996200
Q gi|254780804|r  126 TLRKIAEKFTSV----LAISCYPDNKIHLMDLIE----ESLLIGQKSISKEAKQILLANLG  178 (352)
Q Consensus       126 kl~k~~e~~~~~----~~v~~~~~~~~~l~~~i~----~~~~~~g~~i~~~a~~~L~~~~g  178 (352)
                      -.+|++|+..-.    ..|...+++..+...+++    .+-..+|+.|+++|+..-+..+.
T Consensus       313 EYrk~iEkD~AL~RRFq~I~V~EPs~e~t~~IL~gl~~~yE~hH~V~i~d~Ai~aav~LS~  373 (852)
T TIGR03346       313 EYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSH  373 (852)
T ss_pred             HHHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEECHHHHHHHHHHHC
T ss_conf             9998832268899737712047998689999999769999762792673999999999713


No 107
>pfam02607 B12-binding_2 B12 binding domain. This B12 binding domain is found in methionine synthase EC:2.1.1.13, and other shorter proteins that bind to B12. This domain is always found to the N-terminus of pfam02310. The structure of this domain is known, it is a 4 helix bundle. Many of the conserved residues in this domain are involved in B12 binding, such as those in the MXXVG motif.
Probab=65.96  E-value=7.3  Score=18.11  Aligned_cols=36  Identities=17%  Similarity=0.239  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             146788876410236999999985311000145899
Q gi|254780804|r  218 IEEIINATIQGKIYNAIMLADFFLASKMPSHALLHG  253 (352)
Q Consensus       218 if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~  253 (352)
                      ..++.+++..|+...+....+..+..|.+|..|+..
T Consensus         4 ~~~l~~av~~g~~~~v~~~v~~aL~~g~~p~~ii~~   39 (78)
T pfam02607         4 LEKLAEAVLDGDEEGVEELVEEALAEGVDPLEIINE   39 (78)
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             999999998288877999999999839987999998


No 108
>PRK08485 DNA polymerase III subunit delta'; Validated
Probab=58.26  E-value=12  Score=16.59  Aligned_cols=39  Identities=26%  Similarity=0.276  Sum_probs=26.8

Q ss_pred             CCCEEEEEECCCC-HHHHHHHHHHHHHCCCCCEEEEEEECC
Q ss_conf             8823999847741-045789889885105656079998526
Q gi|254780804|r   81 SKKKIILIENLST-EKKVLDCLEEIIIKNICNHIIIIKSNE  120 (352)
Q Consensus        81 ~~~klIii~~~~~-~k~~~~~l~~~~~~~~~~~~li~~a~~  120 (352)
                      ++.|+|++- +.. ......+|...++.||.++++++.++.
T Consensus        53 ~~~k~ii~~-A~~~n~~a~NaLLK~lEEPp~~~~fili~~~   92 (204)
T PRK08485         53 SEEKIIVIA-APSYGIEAQNALLKILEEPPKNIKFIIVAKS   92 (204)
T ss_pred             CCCEEEEEE-HHHHCHHHHHHHHHHHCCCCCCCEEEEEECC
T ss_conf             686299971-5752699999999874179988079998688


No 109
>PRK12359 flavodoxin FldB; Provisional
Probab=58.06  E-value=12  Score=16.57  Aligned_cols=66  Identities=20%  Similarity=0.310  Sum_probs=46.7

Q ss_pred             EEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEE------------------EEEHHHHHCCHHHHHHHHHCCCCCCCCE
Q ss_conf             7999569965899999999997335666773077------------------6208896418999999871788888823
Q gi|254780804|r   23 VFIFYGSDKGLIFELINQFKKNISITYHDPFSLV------------------VLNALEIQKNISTFWNEINSTSLFSKKK   84 (352)
Q Consensus        23 iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~------------------~~~~~e~~~d~~~l~~~~~t~slF~~~k   84 (352)
                      +=+|||.+.+--+..+++|.+.+..+.-+-+++.                  ..+..|+..||+.+++++..+. |++|+
T Consensus         3 IgifYGS~TGnTe~vA~~I~~~lg~~~vd~~~v~~~~~~~~~~yd~lIlG~pTW~~GeLq~dW~~~~~~l~~~D-~sGK~   81 (169)
T PRK12359          3 IGLFYGSSTCYTEMAAEKIRDIIGEELVDLHNLKDDPPKLMEQYDVLILGIPTWDFGEIQEDWEAVWDQLDDLN-LEGKI   81 (169)
T ss_pred             EEEEEECCCCHHHHHHHHHHHHHCCCCCCEEEHHCCCHHHHHHCCEEEEECCCCCCCCCHHHHHHHHHHHHHCC-CCCCE
T ss_conf             99999799970999999999985614523132502998799629879997686677865767999998886388-78988


Q ss_pred             EEEEE
Q ss_conf             99984
Q gi|254780804|r   85 IILIE   89 (352)
Q Consensus        85 lIii~   89 (352)
                      +-++=
T Consensus        82 VAlFG   86 (169)
T PRK12359         82 VALYG   86 (169)
T ss_pred             EEEEE
T ss_conf             99984


No 110
>CHL00095 clpC Clp protease ATP binding subunit
Probab=54.69  E-value=14  Score=16.21  Aligned_cols=141  Identities=13%  Similarity=0.113  Sum_probs=62.4

Q ss_pred             ECCCHHHHHHHHHHHHHHHCCC----CCCCCEEEEEEHHHHH----------CCHHHHHHHHHCCCCCCCCEEEEEECC-
Q ss_conf             5699658999999999973356----6677307762088964----------189999998717888888239998477-
Q gi|254780804|r   27 YGSDKGLIFELINQFKKNISIT----YHDPFSLVVLNALEIQ----------KNISTFWNEINSTSLFSKKKIILIENL-   91 (352)
Q Consensus        27 ~G~d~~l~~~~~~~l~k~~~~~----~~~~~~~~~~~~~e~~----------~d~~~l~~~~~t~slF~~~klIii~~~-   91 (352)
                      .|+.---+...++-+...+..+    .--...+..+|-..+.          .-...+++++...    +.-+++|++. 
T Consensus       206 vGepGVGKTAIvEGLA~rI~~g~VP~~L~~~~i~sLDl~~L~AGtkyRGeFEeRlk~il~ei~~~----~~iILFIDEiH  281 (823)
T CHL00095        206 IGEPGVGKTAIAEGLAQRIANRDVPDILEDKLVLTLDIGLLLAGTKYRGEFEERIKKIMDEIKKA----NNIILVIDEIH  281 (823)
T ss_pred             ECCCCCCHHHHHHHHHHHHHCCCCCHHHCCCCEEEEEHHHHHHCCCCCHHHHHHHHHHHHHHHHC----CCEEEEECCHH
T ss_conf             37999879999999999760889986875993688428877533422267999999999999857----98699973516


Q ss_pred             -----CC---HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHH----HHCCCCCCCCHHHHHHHH----
Q ss_conf             -----41---04578988988510565607999852654311356676543112----101466442001358898----
Q gi|254780804|r   92 -----ST---EKKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSV----LAISCYPDNKIHLMDLIE----  155 (352)
Q Consensus        92 -----~~---~k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~----~~v~~~~~~~~~l~~~i~----  155 (352)
                           +.   .-+....|+..+..-.   +=++-+..+   .-.+|++|+....    ..|...+++..+....++    
T Consensus       282 tlvGaG~~~g~~DaaNlLKPaLarGe---l~~IGATT~---~EYrk~iEkD~AL~RRFq~V~V~EPs~e~t~~IL~gl~~  355 (823)
T CHL00095        282 TLIGAGAAEGAIDAANILKPALARGK---LQCIGATTL---EEYRKHIEKDPALERRFQPVYVGEPSVEETIEILLGLRD  355 (823)
T ss_pred             HHCCCCCCCCCHHHHHHHHHHHHCCC---CEEEEECCH---HHHHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             53288976664317887657864898---669970788---999998530588996268410289987999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             8754302566756799999620
Q gi|254780804|r  156 ESLLIGQKSISKEAKQILLANL  177 (352)
Q Consensus       156 ~~~~~~g~~i~~~a~~~L~~~~  177 (352)
                      .+-.-+|+.|+++|+..-+..+
T Consensus       356 ~yE~~H~V~i~d~Ai~aav~LS  377 (823)
T CHL00095        356 RYEKHHNLSISDKALEAAAKLS  377 (823)
T ss_pred             HHHHHCCCCCCHHHHHHHHHHH
T ss_conf             9987508850478999999987


No 111
>KOG2549 consensus
Probab=53.26  E-value=15  Score=16.06  Aligned_cols=14  Identities=0%  Similarity=-0.261  Sum_probs=6.6

Q ss_pred             HCCCCCCHHHHHHH
Q ss_conf             10122111467888
Q gi|254780804|r  211 CDTHVLYIEEIINA  224 (352)
Q Consensus       211 ~~~~~~~if~L~da  224 (352)
                      ......+-|.|-|.
T Consensus       304 ~~p~~dnhwaLRDf  317 (576)
T KOG2549         304 LRPELDNHWALRDF  317 (576)
T ss_pred             CCCCCCCHHHHHHH
T ss_conf             88654413889889


No 112
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family; InterPro: IPR012741    This entry describes a subfamily of the B12 binding domain proteins that include corrinoid proteins specific to four different, mutually non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.; GO: 0031419 cobalamin binding, 0050897 cobalt ion binding, 0015948 methanogenesis.
Probab=52.44  E-value=8.5  Score=17.66  Aligned_cols=31  Identities=19%  Similarity=0.296  Sum_probs=16.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf             7888764102369999999853110001458
Q gi|254780804|r  221 IINATIQGKIYNAIMLADFFLASKMPSHALL  251 (352)
Q Consensus       221 L~dai~~~~~~~a~~~l~~l~~~g~~~~~il  251 (352)
                      +.+|+..++...+.+.+++.++.|.+|+-|+
T Consensus         2 ~~~AI~~~~~~~~~~~~~~A~~~G~~P~~lI   32 (201)
T TIGR02370         2 LAEAIVEGEEDDVVELAQKALDAGIDPIELI   32 (201)
T ss_pred             CCCHHCCCCHHHHHHHHHHHHHCCCCHHHHH
T ss_conf             4101124456679999999998188958986


No 113
>TIGR02881 spore_V_K stage V sporulation protein K; InterPro: IPR014232   Proteins in this entry include the stage V sporulation protein K (SpoVK), a close homologue of the Rubisco expression protein CbbX (IPR000470 from INTERPRO), and are members of an ATPase family associated with various cellular activities. These proteins are strictly limited to bacterial endospore-forming species, but are not found universally among members of this group; they are missing from the Clostridium species..
Probab=52.11  E-value=15  Score=15.94  Aligned_cols=93  Identities=18%  Similarity=0.256  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHH----HHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf             4578988988510565607999852654311356676----543112101466442001358898875430256675679
Q gi|254780804|r   95 KKVLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIA----EKFTSVLAISCYPDNKIHLMDLIEESLLIGQKSISKEAK  170 (352)
Q Consensus        95 k~~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~----e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~  170 (352)
                      |...|.|..-.++...+.+||+ ||--+.-..+-..=    ..-+....+|=|  +..+|...+..++++..+.++++|.
T Consensus       127 KEAIDtLVK~mEd~~~~lvlIL-AGY~~EM~yFL~~NPGL~SRFPi~i~FPdY--~~eeL~~Ia~~m~~~ReY~Lt~~A~  203 (261)
T TIGR02881       127 KEAIDTLVKAMEDQRNELVLIL-AGYSDEMDYFLSLNPGLRSRFPISIDFPDY--TVEELMEIAERMVKEREYKLTEEAK  203 (261)
T ss_pred             CHHHHHHHHHHHHCCCCEEEEE-ECCHHHHHHHHHCCCCCCCCCCCEEECCCC--CHHHHHHHHHHHHHHHHHCCCHHHH
T ss_conf             2088899998761569868997-087689999862077977766505418899--8889999999998646422578899


Q ss_pred             HHHHHHHHH----------HHHHHHHHHHH
Q ss_conf             999962001----------23556899999
Q gi|254780804|r  171 QILLANLGG----------DRIASRNELQK  190 (352)
Q Consensus       171 ~~L~~~~g~----------d~~~l~~EleK  190 (352)
                      ..|-+.+-.          |-+.+.|=+||
T Consensus       204 ~~lr~~l~~~~~~~~~~~sNaR~vRN~iE~  233 (261)
T TIGR02881       204 WKLREHLAKVDQLSSREFSNARYVRNIIEK  233 (261)
T ss_pred             HHHHHHHHHHHHHHHCCCCCCCHHHHHHHH
T ss_conf             999999741244421005762012428899


No 114
>PRK09267 flavodoxin FldA; Validated
Probab=51.21  E-value=16  Score=15.85  Aligned_cols=67  Identities=25%  Similarity=0.384  Sum_probs=45.6

Q ss_pred             CEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEE------------------EEEHHHHHCCHHHHHHHHHCCCCCCCC
Q ss_conf             47999569965899999999997335666773077------------------620889641899999987178888882
Q gi|254780804|r   22 FVFIFYGSDKGLIFELINQFKKNISITYHDPFSLV------------------VLNALEIQKNISTFWNEINSTSLFSKK   83 (352)
Q Consensus        22 ~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~------------------~~~~~e~~~d~~~l~~~~~t~slF~~~   83 (352)
                      .+=+|||...+--+..++.|.+.+.....+.+++.                  .+...|+..||+.+++++..+. |+++
T Consensus         3 kIgIfYGS~TGnTE~vA~~I~~~lg~~~~dv~di~~~~~~d~~~yd~lIlG~~Twg~GeLq~dW~df~~~l~~~D-lsGK   81 (169)
T PRK09267          3 KIGIFFGSDTGNTEDIAKMIQKKLGKDVADVVDIAKASKEDFEAYDLLILGIPTWGYGELQTDWDDFLPELEEID-FSGK   81 (169)
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHCCCCEEEEEHHCCCHHHHHHCCEEEEECCCCCCCCCCHHHHHHHHHHHHCC-CCCC
T ss_conf             289999799985899999999984778757988420998899629879997576788867156999999997378-7998


Q ss_pred             EEEEEE
Q ss_conf             399984
Q gi|254780804|r   84 KIILIE   89 (352)
Q Consensus        84 klIii~   89 (352)
                      ++=++=
T Consensus        82 ~vAlFG   87 (169)
T PRK09267         82 KVALFG   87 (169)
T ss_pred             EEEEEE
T ss_conf             899984


No 115
>TIGR00635 ruvB Holliday junction DNA helicase RuvB; InterPro: IPR004605 All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.; GO: 0003677 DNA binding, 0005524 ATP binding, 0009378 Holliday junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=50.45  E-value=16  Score=15.78  Aligned_cols=186  Identities=13%  Similarity=0.174  Sum_probs=110.2

Q ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCCHHH-H
Q ss_conf             138479995699658999999999973356667730776208896418999999871788888823999847741045-7
Q gi|254780804|r   19 LSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLSTEKK-V   97 (352)
Q Consensus        19 ~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~~k~-~   97 (352)
                      +-|  .|||||.-.-+-..+.-+.+..+.      ++..-.|--+.. +..|..-+   +-..++-|..|+...-... +
T Consensus        30 LDH--~LL~GPPGLGKTTLA~IiA~Emg~------~l~iTsGP~L~k-PgDlaaiL---t~L~~gDVLFIDEIHRL~p~~   97 (305)
T TIGR00635        30 LDH--LLLYGPPGLGKTTLAHIIANEMGV------NLKITSGPALEK-PGDLAAIL---TNLEEGDVLFIDEIHRLSPAI   97 (305)
T ss_pred             CCC--EEEECCCCCCHHHHHHHHHHHHCC------CCEEEECCCCCC-HHHHHHHH---HHCCCCCEEECCHHHHCCHHH
T ss_conf             341--663175687467899999998389------326740675547-57899999---705689631012565048334


Q ss_pred             HHHHHHHHHC--------CCCCEEEE-EE------------ECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             8988988510--------56560799-98------------526543113566765431121014664420013588988
Q gi|254780804|r   98 LDCLEEIIIK--------NICNHIII-IK------------SNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEE  156 (352)
Q Consensus        98 ~~~l~~~~~~--------~~~~~~li-~~------------a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~  156 (352)
                      -+.|-..++.        .-++.-.| +.            +|.+  .++|+.   .-..+.-+.+|.  ..++...|..
T Consensus        98 EE~LYpAMEDF~lDi~IG~Gp~Ar~v~ldLpPFTLvGATTR~G~l--t~PLrd---RFG~~~rl~fY~--~~EL~~Iv~R  170 (305)
T TIGR00635        98 EELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAGML--TSPLRD---RFGIILRLEFYT--PEELAEIVSR  170 (305)
T ss_pred             HHHCCCCCCCEEEEEEEECCCCCCEEEECCCCCCCCCCCCCCCCC--CCCHHH---HHHHHHHCCCCC--HHHHHHHHHH
T ss_conf             531053001217877871289852576068694420000347741--031334---544745402689--8789999875


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCHHHHHHHHHCC-CCCCHHHHHH
Q ss_conf             754302566756799999620012355689999997510--344434888887753101-2211146788
Q gi|254780804|r  157 SLLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYC--LEDILITEQHVKDIICDT-HVLYIEEIIN  223 (352)
Q Consensus       157 ~~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~--~~~~~It~~dI~~~v~~~-~~~~if~L~d  223 (352)
                      .+...++.|+++++..++.++-+=.+....=+-..-=|+  -+...||.+-+.+.+..- .+..-+|-.|
T Consensus       171 ~A~~L~~ei~~~~a~~IArrSRGTPRIAnRLLRRVRDfA~V~~~~~I~~~i~~~AL~~L~iD~~GLd~~D  240 (305)
T TIGR00635       171 SAGLLNIEIEQEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQGVITRDIALKALEMLDIDELGLDEID  240 (305)
T ss_pred             HHHHCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             3344143007789999987547863788877676644888726787388999999886253330057998


No 116
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=49.33  E-value=17  Score=15.66  Aligned_cols=182  Identities=16%  Similarity=0.150  Sum_probs=91.4

Q ss_pred             CCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHH-HH--CCCCC-CCCE----------
Q ss_conf             1384799956996589999999999733566677307762088964189999998-71--78888-8823----------
Q gi|254780804|r   19 LSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNE-IN--STSLF-SKKK----------   84 (352)
Q Consensus        19 ~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~-~~--t~slF-~~~k----------   84 (352)
                      -++.=+|++||----++-.++.| .+..+..+-+|-  ...+.-   =|+.|+++ +.  ...-| |..+          
T Consensus       266 ~tdstVLi~GESGTGKElfA~~I-H~~S~R~~~PFI--aiNCaA---iPe~LlESELFGye~GAFTGA~~~GK~GlfE~A  339 (560)
T COG3829         266 KTDSTVLILGESGTGKELFARAI-HNLSPRANGPFI--AINCAA---IPETLLESELFGYEKGAFTGASKGGKPGLFELA  339 (560)
T ss_pred             CCCCCEEEECCCCCCHHHHHHHH-HHCCCCCCCCEE--EEECCC---CCHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEC
T ss_conf             89982899537886689999998-744843479807--876433---888888888727677642464457997605441


Q ss_pred             ---EEEEECCCC-HHHHHHHHHHHHHC----------C-CCCEEEEEEECCCCCC-----HHHHHHHHHHHHHHHCCCCC
Q ss_conf             ---999847741-04578988988510----------5-6560799985265431-----13566765431121014664
Q gi|254780804|r   85 ---IILIENLST-EKKVLDCLEEIIIK----------N-ICNHIIIIKSNEIKKN-----NTLRKIAEKFTSVLAISCYP  144 (352)
Q Consensus        85 ---lIii~~~~~-~k~~~~~l~~~~~~----------~-~~~~~li~~a~~l~k~-----~kl~k~~e~~~~~~~v~~~~  144 (352)
                         -++++..++ +......|...++.          + +-|+- |+.|.+-...     -++|.-+=.--++..+...|
T Consensus       340 ~gGTLFLDEIgempl~LQaKLLRVLQEkei~rvG~t~~~~vDVR-IIAATN~nL~~~i~~G~FReDLYYRLNV~~i~iPP  418 (560)
T COG3829         340 NGGTLFLDEIGEMPLPLQAKLLRVLQEKEIERVGGTKPIPVDVR-IIAATNRNLEKMIAEGTFREDLYYRLNVIPITIPP  418 (560)
T ss_pred             CCCEEEEHHHCCCCHHHHHHHHHHHHHCEEEECCCCCCEEEEEE-EEECCCCCHHHHHHCCCCHHHHEEEECEEEECCCC
T ss_conf             69837712320399899999999875353785378875356789-99425758999986396165530030401114777


Q ss_pred             C--CCHHHHHHHHHHHHH----CCC---CCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             4--200135889887543----025---6675679999962-0012355689999997510344434888887
Q gi|254780804|r  145 D--NKIHLMDLIEESLLI----GQK---SISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHVK  207 (352)
Q Consensus       145 ~--~~~~l~~~i~~~~~~----~g~---~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI~  207 (352)
                      +  ...++...+..++.+    +|.   .++++|.+.|..+ -.||.+.+.|-+|.+.++..+...|+.++.-
T Consensus       419 LReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~~L~~y~WPGNVRELeNviER~v~~~~~~~~I~~~~lp  491 (560)
T COG3829         419 LRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALALLLRYDWPGNVRELENVIERAVNLVESDGLIDADDLP  491 (560)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCEEEHHHCC
T ss_conf             2338201899999999999987288766689999999986899960999999999998106886622252262


No 117
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=48.14  E-value=18  Score=15.54  Aligned_cols=21  Identities=10%  Similarity=-0.103  Sum_probs=12.5

Q ss_pred             HHHHHHHHCCCHHHHHHHHHH
Q ss_conf             999999864998999999999
Q gi|254780804|r  292 NILQESLRIWNKNLVRETLHK  312 (352)
Q Consensus       292 ~~~~~q~~~~s~~~l~~~l~~  312 (352)
                      ..+.+....||...++.+...
T Consensus       328 ~~lA~~T~G~SGADI~~lc~E  348 (390)
T PRK03992        328 EELAELTEGASGADLKAICTE  348 (390)
T ss_pred             HHHHHHCCCCCHHHHHHHHHH
T ss_conf             999976879989999999999


No 118
>PRK10865 protein disaggregation chaperone; Provisional
Probab=47.51  E-value=18  Score=15.48  Aligned_cols=75  Identities=9%  Similarity=0.059  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHHHH----HHCCCCCCCCHHHHHHHH----HHHHHCCCCCCHH
Q ss_conf             78988988510565607999852654311356676543112----101466442001358898----8754302566756
Q gi|254780804|r   97 VLDCLEEIIIKNICNHIIIIKSNEIKKNNTLRKIAEKFTSV----LAISCYPDNKIHLMDLIE----ESLLIGQKSISKE  168 (352)
Q Consensus        97 ~~~~l~~~~~~~~~~~~li~~a~~l~k~~kl~k~~e~~~~~----~~v~~~~~~~~~l~~~i~----~~~~~~g~~i~~~  168 (352)
                      ....|+.++..-.   +=++-+..+   .-.+|++|+..-.    ..|..-+++..+...+++    .+-..+|+.|+++
T Consensus       295 aaNlLKPaLaRGe---lr~IGATT~---~EYrk~iEkD~AL~RRFq~V~V~EPs~e~ti~ILrgl~~~yE~hH~V~itde  368 (857)
T PRK10865        295 AGNMLKPALARGE---LHCVGATTL---DEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLKERYELHHHVQITDP  368 (857)
T ss_pred             HHHHHHHHHHCCC---CEEEEECCH---HHHHHHCCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEECHH
T ss_conf             7888678873798---549994589---9999871345889985371006899879999999988889987379158799


Q ss_pred             HHHHHHHHH
Q ss_conf             799999620
Q gi|254780804|r  169 AKQILLANL  177 (352)
Q Consensus       169 a~~~L~~~~  177 (352)
                      |+..-+..+
T Consensus       369 Al~aAV~LS  377 (857)
T PRK10865        369 AIVAAATLS  377 (857)
T ss_pred             HHHHHHHHH
T ss_conf             999999986


No 119
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=45.43  E-value=19  Score=15.27  Aligned_cols=184  Identities=11%  Similarity=0.081  Sum_probs=96.5

Q ss_pred             HCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHH------CCCCC--CCCEEEEEE
Q ss_conf             0138479995699658999999999973356667730776208896418999999871------78888--882399984
Q gi|254780804|r   18 FLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEIN------STSLF--SKKKIILIE   89 (352)
Q Consensus        18 ~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~------t~slF--~~~klIii~   89 (352)
                      ...+.=.||+||----++..++.+- ..+...+.+|-.....+  +  ..+.+-+++.      ..++|  ++.--++++
T Consensus       224 A~~d~pVLI~GEsGTGKellAraIH-~~S~R~~~pFv~vnC~a--l--p~~l~eseLFG~a~~~~~G~fe~A~gGTLfLd  298 (513)
T PRK10820        224 AMLSAPLLITGDTGTGKDLFAYACH-LASPRAKKPYLALNCAS--I--PEDAVESELFGHAPEGKKGFFEQANGGSVLLD  298 (513)
T ss_pred             HCCCCCEEEECCCCCCHHHHHHHHH-HCCCCCCCCCEEEECCC--C--CHHHHHHHHCCCCCCCCCCCEEECCCCEEEEE
T ss_conf             5989988998989824999999999-66887899826888998--9--96789998638766688975578589889997


Q ss_pred             CCCC-HHHHHHHHHHHHHC----C-------CCCEEEEEEEC-CCCC---CHHHHHHHHHHHHHHHCCCCCCC--CHHHH
Q ss_conf             7741-04578988988510----5-------65607999852-6543---11356676543112101466442--00135
Q gi|254780804|r   90 NLST-EKKVLDCLEEIIIK----N-------ICNHIIIIKSN-EIKK---NNTLRKIAEKFTSVLAISCYPDN--KIHLM  151 (352)
Q Consensus        90 ~~~~-~k~~~~~l~~~~~~----~-------~~~~~li~~a~-~l~k---~~kl~k~~e~~~~~~~v~~~~~~--~~~l~  151 (352)
                      +.+. +-.....|..+++.    +       +-++-+|..+. ++..   ...++.-+-..-++..+..+|+.  ..++.
T Consensus       299 EI~~l~~~~Q~kLLr~Lq~~~~~rvG~~~~~~~dvRiIaaT~~dL~~lv~~g~FReDLyyRL~v~~I~lPpLReR~eDI~  378 (513)
T PRK10820        299 EIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQKGLFREDLYYRLNVLTLNLPPLRDCPQDIM  378 (513)
T ss_pred             CHHHCCHHHHHHHHHHHHCCEEEECCCCCEEEEEEEEEECCCHHHHHHHHCCCCCHHHHHHHHCCCCCCCCHHHCHHHHH
T ss_conf             83659999999999998689799659985356778999626530999987298508899986167255888344655699


Q ss_pred             HH----HHHHHHHCCC---CCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             88----9887543025---6675679999962-0012355689999997510344434888887
Q gi|254780804|r  152 DL----IEESLLIGQK---SISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHVK  207 (352)
Q Consensus       152 ~~----i~~~~~~~g~---~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI~  207 (352)
                      ..    +..+..+.|.   .++++|...|..+ -.||.+.+.|.++...+.+.+ ..|+.+|+.
T Consensus       379 ~L~~~fl~~~~~~~g~~~~~ls~~a~~~L~~y~WPGNVREL~n~iera~~~~~g-~~i~~~di~  441 (513)
T PRK10820        379 PLTELFVARFADEQGVPRPKLSADLSTVLTRYGWPGNVRQLKNAIYRALTQLEG-YELRPQDIL  441 (513)
T ss_pred             HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCC-CCCCHHHCC
T ss_conf             999999999999759998984799999997089997999999999999995799-853499828


No 120
>smart00427 H2B Histone H2B.
Probab=44.46  E-value=20  Score=15.18  Aligned_cols=60  Identities=17%  Similarity=0.129  Sum_probs=46.1

Q ss_pred             HHHHHHHH--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCC
Q ss_conf             89887543--02566756799999620012355689999997510344434888887753101
Q gi|254780804|r  153 LIEESLLI--GQKSISKEAKQILLANLGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDT  213 (352)
Q Consensus       153 ~i~~~~~~--~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~  213 (352)
                      +|...+++  -+..|+..|++.+-..+..-...+..|--+|+-|. .+.+||..+|+..+---
T Consensus         6 Yi~kVLKqVhp~~giS~kam~imnsfv~diferIa~eA~~L~~~~-kr~TitsreIqtAvrLl   67 (89)
T smart00427        6 YIYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYN-KKSTLSSREIQTAVRLI   67 (89)
T ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCHHHHHHHHHHH
T ss_conf             999998500899985799999999999999999999999999975-99988399999999997


No 121
>pfam12002 MgsA_C MgsA AAA+ ATPase C terminal. The MgsA protein possesses DNA-dependent ATPase and ssDNA annealing activities. MgsA contributes to the recovery of stalled replication forks and therefore prevents genomic instability caused by aberrant DNA replication. Additionally, MgsA may play a role in chromosomal segregation. This is consistent with a report that MgsA co-localizes with the replisome and affects chromosome segregation. This domain represents the C terminal region of MgsA.
Probab=44.15  E-value=20  Score=15.14  Aligned_cols=65  Identities=9%  Similarity=-0.094  Sum_probs=40.3

Q ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHH
Q ss_conf             10236999999985311000145899999999999999983025689899998608999976899999998649989999
Q gi|254780804|r  228 GKIYNAIMLADFFLASKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEKNIIPMKRNILQESLRIWNKNLVR  307 (352)
Q Consensus       228 ~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~p~~~~~k~~~~~q~~~~s~~~l~  307 (352)
                      .|...|+..+.+++..|++|..|       +|+|+.+... +.+..++....          ......+++++.+.++-+
T Consensus         2 SD~dAAlyylarml~~GEDp~~I-------~RRl~~~AsE-DIGlAdP~al~----------~a~~a~~a~~~iG~PE~~   63 (168)
T pfam12002         2 SDPDAALYWLARMLEGGEDPLFI-------ARRLVIIASE-DIGLADPQALQ----------LAVAAAQAVERIGMPEGR   63 (168)
T ss_pred             CCCCHHHHHHHHHHHCCCCHHHH-------HHHHHHHHHH-HHCCCCHHHHH----------HHHHHHHHHHHHCCHHHH
T ss_conf             88009999999999859988999-------9999999975-41265753999----------999999999985828799


Q ss_pred             HHH
Q ss_conf             999
Q gi|254780804|r  308 ETL  310 (352)
Q Consensus       308 ~~l  310 (352)
                      -.|
T Consensus        64 i~L   66 (168)
T pfam12002        64 IAL   66 (168)
T ss_pred             HHH
T ss_conf             999


No 122
>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]
Probab=40.30  E-value=23  Score=14.76  Aligned_cols=172  Identities=12%  Similarity=0.132  Sum_probs=94.7

Q ss_pred             EEEEECCCHHHHHHHHHHHHHHHCCC-CCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCC------------------
Q ss_conf             79995699658999999999973356-66773077620889641899999987178888882------------------
Q gi|254780804|r   23 VFIFYGSDKGLIFELINQFKKNISIT-YHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKK------------------   83 (352)
Q Consensus        23 iyLi~G~d~~l~~~~~~~l~k~~~~~-~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~------------------   83 (352)
                      =.|++|+--.-++..++.+- ..... ...+  .+.+.+..+..++...  +     |||-+                  
T Consensus       103 ~vLi~GetGtGKel~A~~iH-~~s~r~~~~P--FI~~NCa~~~en~~~~--e-----LFG~~kGaftGa~~~k~Glfe~A  172 (403)
T COG1221         103 PVLIIGETGTGKELFARLIH-ALSARRAEAP--FIAFNCAAYSENLQEA--E-----LFGHEKGAFTGAQGGKAGLFEQA  172 (403)
T ss_pred             CEEEECCCCCCHHHHHHHHH-HHHHCCCCCC--EEEEEHHHHCCCHHHH--H-----HHCCCCCEEECCCCCCCCHHEEC
T ss_conf             47986688753889999999-8612135898--7997777737677777--7-----73200000025667867642052


Q ss_pred             --EEEEEECCCC-HHHHHHHHHHHHHC----------CCCCEEEEEEECCCCCCHHHHH--HHHHHHHHHHCCCCCCCCH
Q ss_conf             --3999847741-04578988988510----------5656079998526543113566--7654311210146644200
Q gi|254780804|r   84 --KIILIENLST-EKKVLDCLEEIIIK----------NICNHIIIIKSNEIKKNNTLRK--IAEKFTSVLAISCYPDNKI  148 (352)
Q Consensus        84 --klIii~~~~~-~k~~~~~l~~~~~~----------~~~~~~li~~a~~l~k~~kl~k--~~e~~~~~~~v~~~~~~~~  148 (352)
                        -.+.+++... .......|..+++.          |.+..+.++.|......+.+.+  .+...-+...|...|+..+
T Consensus       173 ~GGtLfLDEI~~LP~~~Q~kLl~~le~g~~~rvG~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~rl~~~~I~LPpLrER  252 (403)
T COG1221         173 NGGTLFLDEIHRLPPEGQEKLLRVLEEGEYRRVGGSQPRPVDVRLICATTEDLEEAVLAGADLTRRLNILTITLPPLRER  252 (403)
T ss_pred             CCCEEEHHHHHHCCHHHHHHHHHHHHCCCEEECCCCCCCCCCCEEEECCCCCHHHHHHHHCCHHHHHCCCEECCCCHHHC
T ss_conf             79777656365379858999999987186576688888677740451356687999874052556416754318972435


Q ss_pred             --HHH----HHHHHHHHHCCCCC---CHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHH
Q ss_conf             --135----88988754302566---75679999962-00123556899999975103444348888
Q gi|254780804|r  149 --HLM----DLIEESLLIGQKSI---SKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQH  205 (352)
Q Consensus       149 --~l~----~~i~~~~~~~g~~i---~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~d  205 (352)
                        ++.    -++..++++.|..+   +++|...|..+ ..||.+.++|-++-.++.+... .++.++
T Consensus       253 ~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L~~y~~pGNirELkN~Ve~~~~~~~~~-~~~~~~  318 (403)
T COG1221         253 KEDILLLAEHFLKSEARRLGLPLSVDSPEALRALLAYDWPGNIRELKNLVERAVAQASGE-GQDLED  318 (403)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCC-CCCCCC
T ss_conf             555999999999999997399988888999999984889983999999999999973545-678510


No 123
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=39.50  E-value=24  Score=14.68  Aligned_cols=40  Identities=25%  Similarity=0.331  Sum_probs=19.7

Q ss_pred             CCCCCCEEEEEECC---CCHHHHHHHHHHHHHC-----CCCCEEEEEE
Q ss_conf             88888239998477---4104578988988510-----5656079998
Q gi|254780804|r   78 SLFSKKKIILIENL---STEKKVLDCLEEIIIK-----NICNHIIIIK  117 (352)
Q Consensus        78 slF~~~klIii~~~---~~~k~~~~~l~~~~~~-----~~~~~~li~~  117 (352)
                      -+|....+.+-.-.   ...+...+.|+.++..     ++..++++-+
T Consensus        48 ~~f~~ge~flp~vl~sA~am~~~~~~L~p~l~~~~~~~~~~GkvvigT   95 (213)
T cd02069          48 DLFGAGKMFLPQVLKSARVMKAAVAYLEPYMEKEKGENSSKGKIVLAT   95 (213)
T ss_pred             HHHCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEE
T ss_conf             985279783799999999999999999998764046788788599997


No 124
>pfam09968 DUF2202 Uncharacterized protein domain (DUF2202). This domain, found in various hypothetical archaeal proteins, has no known function.
Probab=37.29  E-value=26  Score=14.46  Aligned_cols=72  Identities=13%  Similarity=0.126  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             689999997510344434888887753101221114678887641023699999998531100014589999999
Q gi|254780804|r  184 SRNELQKLSSYCLEDILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAIMLADFFLASKMPSHALLHGFLQKF  258 (352)
Q Consensus       184 l~~EleKL~ly~~~~~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~L~~~f  258 (352)
                      ...|+++|---.-.++..+..|-..+-....+.+|.||-.++..-+-......+..|.....+.   ++++.|++
T Consensus        67 ~npelQ~LYn~L~~~G~~S~~dAL~VGa~IEelDI~DL~~~i~~t~n~di~~Vy~nL~~GS~NH---LraF~r~l  138 (162)
T pfam09968        67 TNPDLQELYNQLVEKGSKSLEDALKVGATIEDLDIYDLEEAIAETDNQDIKFVYENLMKGSRNH---LRSFVRAL  138 (162)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHH---HHHHHHHH
T ss_conf             8877999999999973352899998382022256999999998508087999999999870888---99999999


No 125
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=37.12  E-value=26  Score=14.44  Aligned_cols=52  Identities=12%  Similarity=-0.024  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHH----HHCCCCCCCCHHHHHHHH----HHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             356676543112----101466442001358898----8754302566756799999620
Q gi|254780804|r  126 TLRKIAEKFTSV----LAISCYPDNKIHLMDLIE----ESLLIGQKSISKEAKQILLANL  177 (352)
Q Consensus       126 kl~k~~e~~~~~----~~v~~~~~~~~~l~~~i~----~~~~~~g~~i~~~a~~~L~~~~  177 (352)
                      -.+|++|+..-.    ..|..-+++..+....++    .+-..+|+.|+++|+..-+..+
T Consensus       327 EYrk~iEkD~AL~RRFq~V~V~EPs~eeti~IL~glk~~yE~hH~V~i~d~Ai~aAv~LS  386 (852)
T TIGR03345       327 EYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELS  386 (852)
T ss_pred             HHHHHHHCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHH
T ss_conf             998886426889962475527999879999999987999855479687089999999998


No 126
>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]
Probab=34.60  E-value=28  Score=14.18  Aligned_cols=171  Identities=13%  Similarity=0.206  Sum_probs=95.7

Q ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCEEEEEECCCCH-HHHHH---
Q ss_conf             99956996589999999999733566677307762088964189999998717888888239998477410-45789---
Q gi|254780804|r   24 FIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKKIILIENLSTE-KKVLD---   99 (352)
Q Consensus        24 yLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~klIii~~~~~~-k~~~~---   99 (352)
                      .||||+.-.-+-..+..+.+..+.      |+..-.|.-+ .-+..+..-+   +-..+.-+++|+...-. ...-+   
T Consensus        55 vLl~GPPGlGKTTLA~IIA~Emgv------n~k~tsGp~l-eK~gDlaaiL---t~Le~~DVLFIDEIHrl~~~vEE~LY  124 (332)
T COG2255          55 VLLFGPPGLGKTTLAHIIANELGV------NLKITSGPAL-EKPGDLAAIL---TNLEEGDVLFIDEIHRLSPAVEEVLY  124 (332)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC------CEEECCCCCC-CCHHHHHHHH---HCCCCCCEEEEEHHHHCCHHHHHHHH
T ss_conf             786479987688899999998567------7376366201-5726599998---63986776777255314742898964


Q ss_pred             -HHHHHHHC------CCCCE-------EEEEE----ECCCCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHC
Q ss_conf             -88988510------56560-------79998----52654311356676543112101466442001358898875430
Q gi|254780804|r  100 -CLEEIIIK------NICNH-------IIIIK----SNEIKKNNTLRKIAEKFTSVLAISCYPDNKIHLMDLIEESLLIG  161 (352)
Q Consensus       100 -~l~~~~~~------~~~~~-------~li~~----a~~l~k~~kl~k~~e~~~~~~~v~~~~~~~~~l~~~i~~~~~~~  161 (352)
                       +.+++...      |..-+       +.++=    ++.+  .++++.-   .....-+.+|.  ..++...|...++..
T Consensus       125 paMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~l--t~PLrdR---FGi~~rlefY~--~~eL~~Iv~r~a~~l  197 (332)
T COG2255         125 PAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGML--TNPLRDR---FGIIQRLEFYT--VEELEEIVKRSAKIL  197 (332)
T ss_pred             HHHHHEEEEEEECCCCCCCEEECCCCCEEEEEECCCCCCC--CCHHHHH---CCCEEEEECCC--HHHHHHHHHHHHHHH
T ss_conf             6753105778972487553476379981375101346645--6336886---28604540588--899999999888873


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCHHHHHHHHH
Q ss_conf             2566756799999620012355689999997510--3444348888877531
Q gi|254780804|r  162 QKSISKEAKQILLANLGGDRIASRNELQKLSSYC--LEDILITEQHVKDIIC  211 (352)
Q Consensus       162 g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~--~~~~~It~~dI~~~v~  211 (352)
                      ++.++++++..++.++-+-.+....-|...-=|+  .++..|+.+-..+.+.
T Consensus       198 ~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRDfa~V~~~~~I~~~ia~~aL~  249 (332)
T COG2255         198 GIEIDEEAALEIARRSRGTPRIANRLLRRVRDFAQVKGDGDIDRDIADKALK  249 (332)
T ss_pred             CCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             8776857999999863699389999999999999981688204899999998


No 127
>KOG2170 consensus
Probab=33.50  E-value=30  Score=14.06  Aligned_cols=23  Identities=9%  Similarity=0.133  Sum_probs=15.2

Q ss_pred             HHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             45789889885105656079998
Q gi|254780804|r   95 KKVLDCLEEIIIKNICNHIIIIK  117 (352)
Q Consensus        95 k~~~~~l~~~~~~~~~~~~li~~  117 (352)
                      .-+...+..+..+|.+.-.|++.
T Consensus        92 ~~Vv~alk~~~~n~~p~KPLvLS  114 (344)
T KOG2170          92 QLVVNALKSHWANPNPRKPLVLS  114 (344)
T ss_pred             HHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             99999999986289999875898


No 128
>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional
Probab=31.62  E-value=32  Score=13.86  Aligned_cols=179  Identities=13%  Similarity=0.142  Sum_probs=89.2

Q ss_pred             CCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHH-------------CCCCCC--CCE
Q ss_conf             38479995699658999999999973356667730776208896418999999871-------------788888--823
Q gi|254780804|r   20 SHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEIN-------------STSLFS--KKK   84 (352)
Q Consensus        20 ~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~-------------t~slF~--~~k   84 (352)
                      ..+ +||.||.---++..++.| ...+.....+|-.+...  .+  +.+.+-.++.             ...+|.  +.=
T Consensus        29 ~~p-VLI~GE~GtGK~~~Ar~I-H~~S~r~~~pfi~v~C~--~l--~~~~~e~~LFG~~~g~~~~~~~~~~g~le~a~gG  102 (325)
T PRK11608         29 DKP-VLIIGERGTGKELIASRL-HYLSSRWQGPFISLNCA--AL--NENLLDSELFGHEAGAFTGAQKRHPGRFERADGG  102 (325)
T ss_pred             CCC-EEEECCCCCCHHHHHHHH-HHCCCCCCCCCEEEECC--CC--CHHHHHHHHCCCCCCCCCCCCCCCCCHHHCCCCC
T ss_conf             999-898898983799999999-96588679997788779--89--9778899872775567677532468734356898


Q ss_pred             EEEEECCCC-HHHHHHHHHHHHHC----------C-CCCEEEEEEEC-CCC---CCHHHHH-HHHHHHHHHHCCCCCCC-
Q ss_conf             999847741-04578988988510----------5-65607999852-654---3113566-76543112101466442-
Q gi|254780804|r   85 IILIENLST-EKKVLDCLEEIIIK----------N-ICNHIIIIKSN-EIK---KNNTLRK-IAEKFTSVLAISCYPDN-  146 (352)
Q Consensus        85 lIii~~~~~-~k~~~~~l~~~~~~----------~-~~~~~li~~a~-~l~---k~~kl~k-~~e~~~~~~~v~~~~~~-  146 (352)
                      -+++++... +......|..+++.          + ..++-+|..+. ++.   ....++. ++.. -.+..|..+|+. 
T Consensus       103 TL~L~eI~~l~~~~Q~~Ll~~l~~~~~~r~g~~~~~~~~~RiIa~t~~~l~~lv~~g~fr~dLy~r-L~~~~I~lPpLRe  181 (325)
T PRK11608        103 TLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVNEGTFRADLLDR-LAFDVVQLPPLRE  181 (325)
T ss_pred             EEEEECHHHCCHHHHHHHHHHHHCCCEEECCCCCCCCCCEEEEECCCHHHHHHHHHCCCHHHHHHH-HHHHHCCCCCHHH
T ss_conf             699737454799999999999864908857998766564688713322089999839567999856-5301115868454


Q ss_pred             -CHHHHHHHH----HHHHHCCC----CCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHH
Q ss_conf             -001358898----87543025----6675679999962-001235568999999751034443488888
Q gi|254780804|r  147 -KIHLMDLIE----ESLLIGQK----SISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHV  206 (352)
Q Consensus       147 -~~~l~~~i~----~~~~~~g~----~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI  206 (352)
                       ..++...+.    +..++.|.    .++++|++.|..+ -.||.+.+.|-++...+.+.+ ..++.+++
T Consensus       182 R~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~a~~~L~~y~WPGNvrEL~n~ierav~~~~~-~~~~~~~~  250 (325)
T PRK11608        182 RQSDIMLMAEHFAIQMCRELGLPLFPGFTERARETLLNYRWPGNIRELKNVVERSVYRHGT-SDYPLDDI  250 (325)
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCC-CCCCHHHH
T ss_conf             7101999999999999998299988888999999996199996599999999999985688-76555542


No 129
>pfam04743 consensus
Probab=30.26  E-value=33  Score=13.72  Aligned_cols=36  Identities=28%  Similarity=0.455  Sum_probs=28.8

Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             5430256675679999962001235568999999751
Q gi|254780804|r  158 LLIGQKSISKEAKQILLANLGGDRIASRNELQKLSSY  194 (352)
Q Consensus       158 ~~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly  194 (352)
                      +.--|+.+|+.++..|.++-.++...+ -|.|||+.-
T Consensus       112 lAvg~itvdds~l~~LLdKrAget~aL-mEMEKlAtA  147 (160)
T pfam04743       112 LAVGGITVDDSALKALLDKRAGETVAL-MEMEKLATA  147 (160)
T ss_pred             HHHCCEEECHHHHHHHHHHHHHHHHHH-HHHHHHHHH
T ss_conf             995470353788999988611118999-999999999


No 130
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147; InterPro: IPR011873    This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterised..
Probab=29.35  E-value=35  Score=13.61  Aligned_cols=154  Identities=8%  Similarity=0.008  Sum_probs=94.3

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHCCCCCCCCHHHHHHHHHC----CCCCCHHH-H
Q ss_conf             01358898875430256675679999962001235-568999999751034443488888775310----12211146-7
Q gi|254780804|r  148 IHLMDLIEESLLIGQKSISKEAKQILLANLGGDRI-ASRNELQKLSSYCLEDILITEQHVKDIICD----THVLYIEE-I  221 (352)
Q Consensus       148 ~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~d~~-~l~~EleKL~ly~~~~~~It~~dI~~~v~~----~~~~~if~-L  221 (352)
                      .+-+.|++++.....-.-..=....++++.|.+.. ..   +.++   +.|++.+|..-|..+++.    ..+...|. |
T Consensus         8 ~dYR~yL~Dyye~rk~~~~~FS~R~fa~KaGfsS~r~~---~~~~---~~GK~~Lt~~~i~k~~~~l~Lde~E~~YF~~M   81 (281)
T TIGR02147         8 TDYRKYLRDYYEERKKTDRAFSWRSFAEKAGFSSKRSY---LKRI---IKGKKNLTKRMIPKFAEALGLDEKEAAYFEAM   81 (281)
T ss_pred             HCHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCHHH---HHHH---HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             03279999999998501543308999986488987778---8899---86667530003576665524672268999997


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHCCCHH-----HHHHH-HHHHHHHHHHH-----HHHHCCCCCHHHHHHHHCCCCCHHH
Q ss_conf             8887641023699999998531100014-----58999-99999999999-----9830256898999986089999768
Q gi|254780804|r  222 INATIQGKIYNAIMLADFFLASKMPSHA-----LLHGF-LQKFQLLEKIH-----IIKECSNISFEKIIQKTEKNIIPMK  290 (352)
Q Consensus       222 ~dai~~~~~~~a~~~l~~l~~~g~~~~~-----il~~L-~~~f~~L~~~~-----~~~~~~g~~~~~~~~~~~~p~~~~~  290 (352)
                      +...=.++.......++++......+..     ++..= ..+|+.++...     ..+.-.|.+++.....+.|+     
T Consensus        82 V~F~~Akt~~ek~~~f~~m~~~~~~~~~~qqml~l~~~~feyy~~Wy~sviRe~~~~~~~~~~~~~~la~~~~P~-----  156 (281)
T TIGR02147        82 VAFNQAKTDAEKQQFFEEMQALKPRPKKRQQMLVLAKEQFEYYSHWYYSVIRELVAVMPFADDDPEELAKRLKPK-----  156 (281)
T ss_pred             HHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHCCC-----
T ss_conf             411157886789999999998501301135776430888658762158999999875489999868999870798-----


Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHC
Q ss_conf             99999998649989999999999999999532
Q gi|254780804|r  291 RNILQESLRIWNKNLVRETLHKIDHRIHLARK  322 (352)
Q Consensus       291 k~~~~~q~~~~s~~~l~~~l~~L~~~d~~~K~  322 (352)
                                .|..++++.|..|.++.+--|.
T Consensus       157 ----------IS~~qvk~sl~LL~~l~li~K~  178 (281)
T TIGR02147       157 ----------ISAEQVKESLDLLERLGLIKKN  178 (281)
T ss_pred             ----------CCHHHHHHHHHHHHHCCCCEEE
T ss_conf             ----------5789999999998623320110


No 131
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=28.70  E-value=35  Score=13.54  Aligned_cols=183  Identities=13%  Similarity=0.149  Sum_probs=93.0

Q ss_pred             EEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHH----------CCCCC--CCCEEEEEEC
Q ss_conf             79995699658999999999973356667730776208896418999999871----------78888--8823999847
Q gi|254780804|r   23 VFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEIN----------STSLF--SKKKIILIEN   90 (352)
Q Consensus        23 iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~----------t~slF--~~~klIii~~   90 (352)
                      -.||.||----++..++.|- ........+|-.  ++..-+  +.+.+-.++.          ..+.|  ++.-.+++++
T Consensus       350 pVLI~GE~GtGKe~lAraIH-~~S~r~~~pfv~--vnC~ai--~~~~~e~elfG~~~~~~~~g~~g~~e~A~gGTL~Lde  424 (639)
T PRK11388        350 PILLCGEEGVGKALLAQAIH-NESERAAGPYIA--VNCQLL--PDEALAEEFLGSDRTDSENGRLSKFELAHGGTLFLEK  424 (639)
T ss_pred             CEEEECCCCCCHHHHHHHHH-HCCCCCCCCEEE--EECCCC--CHHHHHHHHCCCCCCCCCCCCCCHHHCCCCCEEEECC
T ss_conf             68988989810999999999-557778998189--878989--8467899873877676434668624403698288467


Q ss_pred             CCC-HHHHHHHHHHHHHC----CC-------CCEEEEEEEC-CCCC---CHHHHHHHHHHHHHHHCCCCCCCC--HHHHH
Q ss_conf             741-04578988988510----56-------5607999852-6543---113566765431121014664420--01358
Q gi|254780804|r   91 LST-EKKVLDCLEEIIIK----NI-------CNHIIIIKSN-EIKK---NNTLRKIAEKFTSVLAISCYPDNK--IHLMD  152 (352)
Q Consensus        91 ~~~-~k~~~~~l~~~~~~----~~-------~~~~li~~a~-~l~k---~~kl~k~~e~~~~~~~v~~~~~~~--~~l~~  152 (352)
                      ... .......|...++.    +.       -++.+|..+. ++..   ...++.-+-..-.+..|...|+.+  .++..
T Consensus       425 I~~lp~~~Q~~LlrvL~~~~~~r~g~~~~~~vdvRiiaat~~~l~~~v~~g~fr~dLyyrl~~~~i~lPpLReR~~Di~~  504 (639)
T PRK11388        425 VEYLSVELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVEQNRFSRQLYYALHAFEITIPPLRMRREDIPA  504 (639)
T ss_pred             HHHCCHHHHHHHHHHHHCCCEEECCCCCEEEEEEEEEEECCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHCHHHHHH
T ss_conf             26499999999999986593785699946664279997364508999874985499998767441057332325343999


Q ss_pred             HHHHHHHH----CC--CCCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             89887543----02--56675679999962-00123556899999975103444348888877531
Q gi|254780804|r  153 LIEESLLI----GQ--KSISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHVKDIIC  211 (352)
Q Consensus       153 ~i~~~~~~----~g--~~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~  211 (352)
                      ++..++.+    .|  ..++++|...|..+ -.+|.+.+.|-++...+.+ +...|+.+|+-..+.
T Consensus       505 L~~~~l~~~~~~~~~~~~ls~~a~~~L~~y~WPGNvrEL~nvl~~a~~~~-~~~~I~~~~Lp~~~~  569 (639)
T PRK11388        505 LVNNKLRSLEKRFSTRLKIDDDALARLVSYRWPGNDFELRSVIENLALSS-DNGRIRLSDLPEHLF  569 (639)
T ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHC-CCCCCCHHHCCHHHH
T ss_conf             99999999999719999989999999972899979999999999999838-998426797808775


No 132
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=27.80  E-value=37  Score=13.44  Aligned_cols=20  Identities=10%  Similarity=0.132  Sum_probs=9.1

Q ss_pred             CHHHHHHHHHHHHHHHHHHH
Q ss_conf             75679999962001235568
Q gi|254780804|r  166 SKEAKQILLANLGGDRIASR  185 (352)
Q Consensus       166 ~~~a~~~L~~~~g~d~~~l~  185 (352)
                      .-.|.+++-+.+|.-...++
T Consensus       181 ~vkat~liGehVGdgar~Ih  200 (368)
T COG1223         181 LVKATELIGEHVGDGARRIH  200 (368)
T ss_pred             EECHHHHHHHHHHHHHHHHH
T ss_conf             71168888877435989999


No 133
>PRK04036 DNA polymerase II small subunit; Validated
Probab=27.11  E-value=38  Score=13.36  Aligned_cols=14  Identities=7%  Similarity=0.131  Sum_probs=5.7

Q ss_pred             HHHHHHHHHHHHHC
Q ss_conf             55689999997510
Q gi|254780804|r  182 IASRNELQKLSSYC  195 (352)
Q Consensus       182 ~~l~~EleKL~ly~  195 (352)
                      ..+..+.+|..-+.
T Consensus       251 ~Fle~~w~kFi~Wl  264 (497)
T PRK04036        251 EFLEDAFEKFLDWL  264 (497)
T ss_pred             HHHHHHHHHHHHHH
T ss_conf             78799999999986


No 134
>KOG2680 consensus
Probab=26.14  E-value=39  Score=13.25  Aligned_cols=62  Identities=11%  Similarity=0.085  Sum_probs=32.9

Q ss_pred             HHHHCCCCCCCCH---HHHHHHHHCCCCCCHHHH------HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             9751034443488---888775310122111467------88876410236999999985311000145899
Q gi|254780804|r  191 LSSYCLEDILITE---QHVKDIICDTHVLYIEEI------INATIQGKIYNAIMLADFFLASKMPSHALLHG  253 (352)
Q Consensus       191 L~ly~~~~~~It~---~dI~~~v~~~~~~~if~L------~dai~~~~~~~a~~~l~~l~~~g~~~~~il~~  253 (352)
                      |++|.|+.+.|-.   +.|..-|..+.+..--++      +|-+-.-| .+++..+++.+.....|+.+.++
T Consensus       254 lALFsGdTGEIr~EvRdqin~KV~eWreEGKAeivpGVLFIDEvHMLD-IEcFsFlNrAlE~d~~PiiimaT  324 (454)
T KOG2680         254 LALFSGDTGEIRSEVRDQINTKVAEWREEGKAEIVPGVLFIDEVHMLD-IECFSFLNRALENDMAPIIIMAT  324 (454)
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHHHCCCEEECCCEEEEEEEHHHH-HHHHHHHHHHHHHCCCCEEEEEC
T ss_conf             899707865201888988878889888617724225517874002111-57999888876504685799972


No 135
>TIGR01854 lipid_A_lpxH UDP-2,3-diacylglucosamine hydrolase; InterPro: IPR010138   This entry represents LpxH, or UDP-2,3-diacylglucosamine hydrolase (or pyrophosphatase), which is an essential enzyme in Escherichia coli that catalyses the fourth step in lipid A biosynthesis. This reaction involves pyrophosphate bond hydrolysis of the precursor UDP-2,3-diacylglucosamine to yield 2,3-diacylglucosamine 1-phosphate and UMP . Several Gram-negative bacteria have homologues of LpxH and/or LpxH2, while others have only distant orthologues of LpxH or LpxH2, or lack these enzymes altogether .; GO: 0016462 pyrophosphatase activity, 0009245 lipid A biosynthetic process, 0005737 cytoplasm.
Probab=25.18  E-value=41  Score=13.13  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=14.9

Q ss_pred             CEEEEECCCHHHHHHHHHHHHHHHCCC
Q ss_conf             479995699658999999999973356
Q gi|254780804|r   22 FVFIFYGSDKGLIFELINQFKKNISIT   48 (352)
Q Consensus        22 ~iyLi~G~d~~l~~~~~~~l~k~~~~~   48 (352)
                      +||+.+|+-.||+=   +.+.+..+..
T Consensus        71 ~~YF~~GNRDFLiG---~~Far~aG~~   94 (241)
T TIGR01854        71 PCYFMHGNRDFLIG---KRFAREAGMT   94 (241)
T ss_pred             EEEEECCCCHHHHH---HHHHHHHCCE
T ss_conf             79840598515666---8999970881


No 136
>KOG2794 consensus
Probab=24.07  E-value=43  Score=13.00  Aligned_cols=12  Identities=33%  Similarity=0.396  Sum_probs=7.3

Q ss_pred             CCCEEEEECCCH
Q ss_conf             384799956996
Q gi|254780804|r   20 SHFVFIFYGSDK   31 (352)
Q Consensus        20 ~~~iyLi~G~d~   31 (352)
                      -+++|+--|+|.
T Consensus        42 iyPlFI~e~~dd   53 (340)
T KOG2794          42 IYPLFIHEGEDD   53 (340)
T ss_pred             EEEEEEECCCCC
T ss_conf             356887427655


No 137
>TIGR01848 PHA_reg_PhaR polyhydroxyalkanoate synthesis repressor PhaR; InterPro: IPR010134   This entry identifies the polyhydroxyalkanoate synthesis repressor, PhaR and related proteins. The gene for PhaR regulatory protein is found in general near other genes encoding proteins associated with polyhydroxyalkanoate (PHA) granule biosynthesis and utilization. It is found to be a DNA-binding homotetramer that is also capable of binding short chain hydroxyalkanoic acids and PHA granules. PhaR may regulate the expression of itself, of the phasins that coat granules, and of enzymes that direct carbon flux into polymers stored in granules. The C-terminal region is poorly conserved in this family of proteins..
Probab=23.51  E-value=44  Score=12.93  Aligned_cols=55  Identities=7%  Similarity=0.158  Sum_probs=35.5

Q ss_pred             CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH--HHHHHHHH-HHCCCHH---HHHHHHH
Q ss_conf             434888887753101221114678887641023699--99999853-1100014---5899999
Q gi|254780804|r  199 ILITEQHVKDIICDTHVLYIEEIINATIQGKIYNAI--MLADFFLA-SKMPSHA---LLHGFLQ  256 (352)
Q Consensus       199 ~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a~--~~l~~l~~-~g~~~~~---il~~L~~  256 (352)
                      .=||.|||..+|-.-.+   |..+||--.-|+-+++  +++-+--. .|+.|+.   +|+.|.|
T Consensus        18 ~YvTLEd~~~lv~~G~e---f~V~D~Ksg~D~TR~~LLQIIaeeE~r~G~qp~ls~~~L~~iIR   78 (109)
T TIGR01848        18 SYVTLEDIRDLVVEGRE---FKVVDAKSGDDLTRSVLLQIIAEEEERGGEQPLLSTDFLTQIIR   78 (109)
T ss_pred             CCCCHHHHHHHHHCCCC---EEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHH
T ss_conf             41008659987127987---06875478985368899999988651798598464889999988


No 138
>TIGR01476 chlor_syn_BchG bacteriochlorophyll/chlorophyll synthetase; InterPro: IPR006372   These are a subfamily of a large family of polyprenyltransferases that also includes 4-hydroxybenzoate octaprenyltransferase and protoheme IX farnesyltransferase (heme O synthase). Members of this family are found exclusively in photosynthetic organisms, including a single copy in Arabidopsis thaliana.; GO: 0030494 bacteriochlorophyll biosynthetic process.
Probab=22.61  E-value=35  Score=13.62  Aligned_cols=34  Identities=12%  Similarity=-0.030  Sum_probs=16.0

Q ss_pred             CCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             43488888775310122111467888764102369
Q gi|254780804|r  199 ILITEQHVKDIICDTHVLYIEEIINATIQGKIYNA  233 (352)
Q Consensus       199 ~~It~~dI~~~v~~~~~~~if~L~dai~~~~~~~a  233 (352)
                      +-.+..|++.+=+|.. --+-.|-=.+..+...+.
T Consensus       188 Gi~~lNDfKSveGDr~-lGl~SLpV~~G~~~aa~~  221 (295)
T TIGR01476       188 GIMTLNDFKSVEGDRQ-LGLRSLPVMLGVKVAAKL  221 (295)
T ss_pred             HHHHHHHHHHCCCCHH-CCCCCCCHHHHHHHHHHH
T ss_conf             6677732452015113-463201103124667899


No 139
>pfam04533 Herpes_U44 Herpes virus U44 protein. This is a family of proteins from dsDNA beta-herpesvirinae and gamma-herpesvirinae viruses. The function is not known, and the proteins are named variously as U44, BSRF1, UL71, and M71. The family BSRF1 has been merged into this.
Probab=22.49  E-value=46  Score=12.80  Aligned_cols=55  Identities=22%  Similarity=0.352  Sum_probs=38.5

Q ss_pred             HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCCHHHHHHHHHCCC
Q ss_conf             4302566756799999620012355689999997510-3444348888877531012
Q gi|254780804|r  159 LIGQKSISKEAKQILLANLGGDRIASRNELQKLSSYC-LEDILITEQHVKDIICDTH  214 (352)
Q Consensus       159 ~~~g~~i~~~a~~~L~~~~g~d~~~l~~EleKL~ly~-~~~~~It~~dI~~~v~~~~  214 (352)
                      .--++.++.++++.|.++-.+|...+ -|.|||+... .++...=..+|..+++...
T Consensus       119 avg~~t~~~~~l~~LL~K~a~d~~~L-~emeK~at~i~~D~S~~WA~EI~~il~~~~  174 (211)
T pfam04533       119 AVGEITIDDSALKALLNKRAGDTVAL-MEMEKLATAIKMDNSKAWATEIDPILHSET  174 (211)
T ss_pred             HHCCEEECHHHHHHHHHHHCCHHHHH-HHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
T ss_conf             86211543778999998641007889-999999989831536789998537763676


No 140
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=21.72  E-value=48  Score=12.70  Aligned_cols=35  Identities=3%  Similarity=0.040  Sum_probs=16.0

Q ss_pred             HHHHHHHHHHHHHHCCC--------CCHHHHHHHHHHHHHHHH
Q ss_conf             99999999999953289--------998999999999999963
Q gi|254780804|r  308 ETLHKIDHRIHLARKKK--------YLEKNIIFQTILYIAQTA  342 (352)
Q Consensus       308 ~~l~~L~~~d~~~K~~~--------~~~~~il~~~ll~l~~~a  342 (352)
                      +++..+.++-+-+++.+        .+...+++++=-.++...
T Consensus       394 ~~vd~l~dalliL~~d~Lpnqr~~~~n~~~llek~g~~m~~~i  436 (450)
T COG5095         394 RVVDLLKDALLILQSDGLPNQRTLPPNASGLLEKVGSLMAEKI  436 (450)
T ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             8999999889998326999756799757789999989999999


No 141
>KOG2227 consensus
Probab=21.16  E-value=49  Score=12.62  Aligned_cols=180  Identities=13%  Similarity=0.105  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCH-------HHHHHHHHCCCCC
Q ss_conf             887532100101384799956996589999999999733566677307762088964189-------9999987178888
Q gi|254780804|r    8 KFIQKSTKNLFLSHFVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNI-------STFWNEINSTSLF   80 (352)
Q Consensus         8 ~~~~~~~~~~~~~~~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~-------~~l~~~~~t~slF   80 (352)
                      +|+...-+.. ....+|+- |....-.......+...+.... -.++.+.+....+....       +.+..++.+.+.+
T Consensus       164 ~F~~~hle~~-t~gSlYVs-G~PGtgkt~~l~rvl~~~~~~~-~~~~~v~inc~sl~~~~aiF~kI~~~~~q~~~s~~~~  240 (529)
T KOG2227         164 EFFSLHLELN-TSGSLYVS-GQPGTGKTALLSRVLDSLSKSS-KSPVTVYINCTSLTEASAIFKKIFSSLLQDLVSPGTG  240 (529)
T ss_pred             HHHHHHHHCC-CCCCEEEE-CCCCCCHHHHHHHHHHHHHHHC-CCCEEEEEEECCCCCHHHHHHHHHHHHHHHHCCCCHH
T ss_conf             9998543126-67645751-7998654889999987403431-6651699851235425889999988898874289504


Q ss_pred             ------------CCC-EEEEEECCCC-H-HHHHHHHHHHHHC---CCCCEEEEEEECCCCCCHHHHHHHHH-HH-HHHHC
Q ss_conf             ------------882-3999847741-0-4578988988510---56560799985265431135667654-31-12101
Q gi|254780804|r   81 ------------SKK-KIILIENLST-E-KKVLDCLEEIIIK---NICNHIIIIKSNEIKKNNTLRKIAEK-FT-SVLAI  140 (352)
Q Consensus        81 ------------~~~-klIii~~~~~-~-k~~~~~l~~~~~~---~~~~~~li~~a~~l~k~~kl~k~~e~-~~-~~~~v  140 (352)
                                  ..+ -+|+|-|--+ . ......|-.++++   |....++|-.|..++-...+---+.. .+ .--.+
T Consensus       241 ~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l  320 (529)
T KOG2227         241 MQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLPRLNLDLTIKPKLL  320 (529)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEECHHHHHHHCCCCEEEEEHHCCCCCCCEEEEEEEHHHHHHHHHHHHHHHHCCCCCCCEE
T ss_conf             78999999987525633898721256776046531432100136776605666400135577777666540257887466


Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             4664420013588988754302566756-7999996200123556899999
Q gi|254780804|r  141 SCYPDNKIHLMDLIEESLLIGQKSISKE-AKQILLANLGGDRIASRNELQK  190 (352)
Q Consensus       141 ~~~~~~~~~l~~~i~~~~~~~g~~i~~~-a~~~L~~~~g~d~~~l~~EleK  190 (352)
                      .|.|=+.+++...+.+++...--.+... |+++.+..+.+..+.+...|+-
T Consensus       321 ~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv  371 (529)
T KOG2227         321 VFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDV  371 (529)
T ss_pred             EECCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             556878899999999997405443330389999999862576128999999


No 142
>pfam08158 NUC130_3NT NUC130/3NT domain. This N terminal domain is found in a novel nucleolar protein family.
Probab=20.67  E-value=50  Score=12.56  Aligned_cols=38  Identities=16%  Similarity=0.420  Sum_probs=30.5

Q ss_pred             HCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             01466442001358898875430256675679999962
Q gi|254780804|r  139 AISCYPDNKIHLMDLIEESLLIGQKSISKEAKQILLAN  176 (352)
Q Consensus       139 ~v~~~~~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~  176 (352)
                      +-+|||....+.++-+.+.++++.-.++++.-..++..
T Consensus         5 Va~cYP~~~~~Fp~~L~~lL~~~~~~L~~dlR~~~v~s   42 (52)
T pfam08158         5 VAHCYPKETADFPEELKELLLNHHTVLDPDLREKIVKS   42 (52)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             13626788998799999999984131999999999999


No 143
>TIGR01818 ntrC nitrogen regulation protein NR(I); InterPro: IPR010114   This entry represents Nitrogen regulatory protein C (NtrC), which is a bacterial enhancer-binding protein that activates the transcription of genes encoding enzymes required for nitrogen metabolism. It is phosphorylated by NtrB and interacts with sigma-54. One of the best studied examples is its activation of the gene glnA, which encodes the enzyme glutamine synthetase.. NtrC is composed of three domains , . The 124 residue N-terminal domain is homologous to receiver domains of other response regulator proteins in two-component signal transduction systems , . The 240 residue central domain of NtrC is homologous to a domain found in all activators of the sigma-54 RNA polymerase holoenzyme , . The C-terminal domain has been indicated to contain the determinants necessary for both DNA-binding and dimerization of full-length NtrC.; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0009399 nitrogen fixation, 0050906 detection of stimulus during sensory perception.
Probab=20.18  E-value=51  Score=12.49  Aligned_cols=250  Identities=13%  Similarity=0.101  Sum_probs=136.3

Q ss_pred             CEEEEECCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEHHHHHCCHHHHHHHHHCCCCCCCCE-----------------
Q ss_conf             479995699658999999999973356667730776208896418999999871788888823-----------------
Q gi|254780804|r   22 FVFIFYGSDKGLIFELINQFKKNISITYHDPFSLVVLNALEIQKNISTFWNEINSTSLFSKKK-----------------   84 (352)
Q Consensus        22 ~iyLi~G~d~~l~~~~~~~l~k~~~~~~~~~~~~~~~~~~e~~~d~~~l~~~~~t~slF~~~k-----------------   84 (352)
                      .-+||.||----++-.+..+ ..+++-...||--.-.-.     -|..|+++    =|||=.|                 
T Consensus       159 l~VlI~GESGTGKELVA~AL-H~~s~R~~~PFiAlNmAA-----IP~~L~ES----ELFGHEkGAFTGA~~~~~GRFEQA  228 (471)
T TIGR01818       159 LSVLINGESGTGKELVARAL-HRHSPRARGPFIALNMAA-----IPKDLIES----ELFGHEKGAFTGANTRRQGRFEQA  228 (471)
T ss_pred             CEEEEECCCCCCHHHHHHHH-HCCCCCCCCCCEEECHHH-----CCHHHHHH----HHCCCCCCCCCCCCCCCCCCEEEC
T ss_conf             05888557577589999984-013755577732730232-----22466554----321456530001025567772534


Q ss_pred             ---EEEEECCCC-HHHHHHHHHHHHHC----------CCC-CEEEEEEEC--CCCCC---HHHHHHHHHHHHHHHCCCCC
Q ss_conf             ---999847741-04578988988510----------565-607999852--65431---13566765431121014664
Q gi|254780804|r   85 ---IILIENLST-EKKVLDCLEEIIIK----------NIC-NHIIIIKSN--EIKKN---NTLRKIAEKFTSVLAISCYP  144 (352)
Q Consensus        85 ---lIii~~~~~-~k~~~~~l~~~~~~----------~~~-~~~li~~a~--~l~k~---~kl~k~~e~~~~~~~v~~~~  144 (352)
                         -+.++..++ +-....-|...+..          |.. |+- |+-|.  +++..   -++|.=+---=+++-|..+|
T Consensus       229 ~GGTLFLDEIGDMPl~~QTRLLRVL~~G~f~rVGG~~p~k~DVR-i~AAThq~Le~lv~~G~FReDLfhRL~Vi~i~lPp  307 (471)
T TIGR01818       229 DGGTLFLDEIGDMPLDLQTRLLRVLADGEFYRVGGRTPIKVDVR-IVAATHQDLEALVRQGKFREDLFHRLNVIRIHLPP  307 (471)
T ss_pred             CCCCEECCCCCCCCHHHHHHHHHHHCCCCEEEECCCEEEEEEEE-EEECCCHHHHHHHHCCCCHHHHHHHHCEEEECCCC
T ss_conf             88821010216787768777988640786577268202455046-67336656899965588135555512334621687


Q ss_pred             --CCCHHHHHHHHHHHHHC-------CCCCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCC
Q ss_conf             --42001358898875430-------256675679999962-00123556899999975103444348888877531012
Q gi|254780804|r  145 --DNKIHLMDLIEESLLIG-------QKSISKEAKQILLAN-LGGDRIASRNELQKLSSYCLEDILITEQHVKDIICDTH  214 (352)
Q Consensus       145 --~~~~~l~~~i~~~~~~~-------g~~i~~~a~~~L~~~-~g~d~~~l~~EleKL~ly~~~~~~It~~dI~~~v~~~~  214 (352)
                        +...+++..++.++...       -..+++++.+.|-.+ =.||-+.|.|-+-.|+..+.+ ..|..+||..-+..+.
T Consensus       308 LrER~eDi~~L~rhFL~~a~~~l~~~~k~L~~~~~~~L~~~~WPGNVR~LEN~cR~l~~la~~-~~v~~~d~~~eLA~~~  386 (471)
T TIGR01818       308 LRERREDIPRLARHFLALAAKELDVEPKLLSPEALEALKRYDWPGNVRELENVCRRLTVLASG-DEVLVSDLPAELALSE  386 (471)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCC-CEEEEEECCHHHCCCC
T ss_conf             212266899999999999887428651134889999997258898524577899999873467-6467777576556776


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHH-HHHHH---HHCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCC
Q ss_conf             21114678887641023699999-99853---110001458999999999999999830256898999986089
Q gi|254780804|r  215 VLYIEEIINATIQGKIYNAIMLA-DFFLA---SKMPSHALLHGFLQKFQLLEKIHIIKECSNISFEKIIQKTEK  284 (352)
Q Consensus       215 ~~~if~L~dai~~~~~~~a~~~l-~~l~~---~g~~~~~il~~L~~~f~~L~~~~~~~~~~g~~~~~~~~~~~~  284 (352)
                      ....-.-.+.....+...++..+ ...+.   +|.+...++......|.+.+.-.++..+.|... ++...++.
T Consensus       387 ~~~~~~~~~~~~~~~w~~~l~~~~~~~~~~~~~G~P~~~L~~~~~~~~er~Ll~~AL~~T~G~~~-~AA~~LG~  459 (471)
T TIGR01818       387 RKASAPDSDAVQQDDWEEALEAWAKQALSSGKDGVPEQGLLDEALPELERTLLEAALQHTRGRKQ-EAAKLLGL  459 (471)
T ss_pred             CCHHCCHHCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHH-HHHHHCCC
T ss_conf             31010001022034699999999999862145678816689999998739999999973455068-99986188


No 144
>pfam08319 consensus
Probab=20.08  E-value=51  Score=12.47  Aligned_cols=79  Identities=14%  Similarity=0.111  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEECCCCC--------CHHHHHHHHHHHHHHHCCC--CCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf             5789889885105656079998526543--------1135667654311210146--64420013588988754302566
Q gi|254780804|r   96 KVLDCLEEIIIKNICNHIIIIKSNEIKK--------NNTLRKIAEKFTSVLAISC--YPDNKIHLMDLIEESLLIGQKSI  165 (352)
Q Consensus        96 ~~~~~l~~~~~~~~~~~~li~~a~~l~k--------~~kl~k~~e~~~~~~~v~~--~~~~~~~l~~~i~~~~~~~g~~i  165 (352)
                      ...+.....+...|.++++++.-+.+..        ...+++.+..+.....|+-  -..+..++...+++.+...-..+
T Consensus        51 ~~~~~~k~~Ls~CpSd~YviI~QPGl~a~Df~~~~~~p~L~~~v~~s~s~~~v~eV~g~ld~~~L~~~i~~~C~~~~~~v  130 (305)
T pfam08319        51 DFLDDAKKLLSSCPSDTYVIVNQPGLHAADFETEDSFPFLRRYVLRSSSTVAVPEVVGQLDLDQLESYIESTCGAETTVI  130 (305)
T ss_pred             HHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHCCCCCHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHCCCCEEEE
T ss_conf             89999999972699870799857997566531510057999998269961773322266788999999997637767872


Q ss_pred             CHHHHHHHH
Q ss_conf             756799999
Q gi|254780804|r  166 SKEAKQILL  174 (352)
Q Consensus       166 ~~~a~~~L~  174 (352)
                      +.+......
T Consensus       131 ~~~~~~~~~  139 (305)
T pfam08319       131 DGSSTDFPS  139 (305)
T ss_pred             CCCCCCCCC
T ss_conf             577665531


Done!