Query         027444
Match_columns 223
No_of_seqs    40 out of 42
Neff          2.7 
Searched_HMMs 29240
Date          Mon Mar 25 16:46:26 2013
Command       hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027444.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/027444hhsearch_pdb -cpu 12 -v 0 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3bwv_A Putative 5'(3')-deoxyri  94.6    0.01 3.5E-07   44.7   1.4   48  143-190     4-51  (180)
  2 3or8_A Transcription elongatio  73.6       2 6.8E-05   36.3   2.9   39  148-198    82-120 (197)
  3 3ocu_A Lipoprotein E; hydrolas  66.3    0.38 1.3E-05   41.7  -3.2   72  140-219    55-129 (262)
  4 3pct_A Class C acid phosphatas  63.3     1.4 4.7E-05   38.1  -0.2   71  141-219    56-129 (260)
  5 3ef0_A RNA polymerase II subun  52.7      18  0.0006   32.6   5.1   25  141-165    16-42  (372)
  6 2xp1_A SPT6; transcription, IW  49.8     7.5 0.00025   31.9   2.0   21  149-169    79-99  (178)
  7 3qxg_A Inorganic pyrophosphata  48.2      10 0.00034   28.8   2.4   50  118-174     5-58  (243)
  8 2i7d_A 5'(3')-deoxyribonucleot  47.8      13 0.00044   28.0   2.9   37  143-179     2-40  (193)
  9 2i33_A Acid phosphatase; HAD s  42.9     4.2 0.00014   33.9  -0.5   25  141-165    57-81  (258)
 10 4ekj_A Beta-xylosidase; TIM-ba  38.7     7.8 0.00027   33.8   0.5   32  152-188   131-162 (500)
 11 3nuq_A Protein SSM1, putative   38.5      33  0.0011   26.8   4.1   31  142-172    56-94  (282)
 12 2ak0_A Alpha-conotoxin MII; al  34.0     3.7 0.00013   25.2  -1.6   18   35-52      4-21  (26)
 13 3ef1_A RNA polymerase II subun  32.1      58   0.002   30.4   5.2   28  140-167    23-52  (442)
 14 2ajw_A Alpha-conotoxin MII; al  27.3     7.8 0.00027   23.7  -1.0   16   35-50      4-19  (26)
 15 1q92_A 5(3)-deoxyribonucleotid  27.3      39  0.0013   25.5   2.7   28  143-170     4-31  (197)
 16 4aw7_A GH86A beta-porphyranase  21.0   1E+02  0.0035   30.1   4.8   58  130-192    83-149 (591)

No 1  
>3bwv_A Putative 5'(3')-deoxyribonucleotidase; NP_764060.1, deoxyribonucleotidase-like protein; HET: MSE; 1.55A {Staphylococcus epidermidis}
Probab=94.64  E-value=0.01  Score=44.73  Aligned_cols=48  Identities=21%  Similarity=0.304  Sum_probs=33.9

Q ss_pred             CeEEEEechhhhhhhHHHHHHHHHhhhcCCcccccceeEEEEeecCCC
Q 027444          143 KIVVAVDVDEVLGNFVSALNRFIADRYSLNHSVSEYHVYEFFKIWNCS  190 (223)
Q Consensus       143 k~vVAVDlDEVLg~Fl~aLnKfhnd~Ygt~~sVSDfhvY~F~KIWncS  190 (223)
                      ++.|..|+|-||.++.....+..++.||.+++..++..+.++++++.+
T Consensus         4 ~~~viFD~DGtL~Ds~~~~~~~~~~~~g~~~~~~~~~g~~~~~~~~~~   51 (180)
T 3bwv_A            4 RQRIAIDMDEVLADTLGAVVKAVNERADLNIKMESLNGKKLKHMIPEH   51 (180)
T ss_dssp             CCEEEEETBTTTBCHHHHHHHHHHHHSCCCCCGGGCTTCCC-------
T ss_pred             ccEEEEeCCCcccccHHHHHHHHHHHhCCCCCHHHHcCccHHHHCCch
Confidence            357899999999999999989888899988776665555556666543


No 2  
>3or8_A Transcription elongation factor SPT6; SH2, CTD binding; HET: MES; 1.60A {Candida glabrata} PDB: 3pjp_A* 3psj_A* 3psk_A 2l3t_A 3gxw_A 3gxx_A
Probab=73.63  E-value=2  Score=36.26  Aligned_cols=39  Identities=13%  Similarity=0.197  Sum_probs=28.8

Q ss_pred             EechhhhhhhHHHHHHHHHhhhcCCcccccceeEEEEeecCCChhcccceE
Q 027444          148 VDVDEVLGNFVSALNRFIADRYSLNHSVSEYHVYEFFKIWNCSRDEGKFLL  198 (223)
Q Consensus       148 VDlDEVLg~Fl~aLnKfhnd~Ygt~~sVSDfhvY~F~KIWncSeEES~~~V  198 (223)
                      =||||++.+++++|++..+|-+.-+     +|.       .++.+|..+.+
T Consensus        82 ~DLDElI~~~V~pm~~~v~el~~h~-----kf~-------~g~~~eve~~L  120 (197)
T 3or8_A           82 HDLDQIIVEYLQNKIRLLNELTSNE-----KFK-------AGTKKEVVKFI  120 (197)
T ss_dssp             SSHHHHHHHTHHHHHHHHHHHHTST-----TEE-------CSCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHhCc-----ccc-------CCCHHHHHHHH
Confidence            4899999999999999998877433     222       46776665544


No 3  
>3ocu_A Lipoprotein E; hydrolase, outer membrane; HET: NMN; 1.35A {Haemophilus influenzae} PDB: 3ocv_A* 3ocw_A* 3ocx_A* 3ocz_A* 3ocy_A* 3sf0_A* 2hlk_A 2hll_A 3et4_A 3et5_A
Probab=66.26  E-value=0.38  Score=41.66  Aligned_cols=72  Identities=13%  Similarity=0.082  Sum_probs=37.3

Q ss_pred             CCCCeEEEEechhhhhhhHHHHHHHHHhhhcCCcccccceeEEEEeecCCCh-hcccceEE-Ee-eeccCccEEEEEccc
Q 027444          140 LHGKIVVAVDVDEVLGNFVSALNRFIADRYSLNHSVSEYHVYEFFKIWNCSR-DEGKFLLL-LT-SFNDEICIFLLLTSS  216 (223)
Q Consensus       140 ~~~k~vVAVDlDEVLg~Fl~aLnKfhnd~Ygt~~sVSDfhvY~F~KIWncSe-EES~~~Vh-Fy-~F~~G~~~LvIVTSR  216 (223)
                      ...+|.|.+||||||-....-+......  +.+++..      .|.-|--.. .....-+. |. ....-+++++|||+|
T Consensus        55 ~~~~~avVfDIDgTlldn~~y~~~~~~~--~~~f~~~------~w~~wv~~~~~~~~pG~~ell~~L~~~G~ki~ivTgR  126 (262)
T 3ocu_A           55 KGKKKAVVADLNETMLDNSPYAGWQVQN--NKPFDGK------DWTRWVDARQSRAVPGAVEFNNYVNSHNGKVFYVTNR  126 (262)
T ss_dssp             TTCEEEEEECCBTTTEECHHHHHHHHHH--TCCCCHH------HHHHHHHHTCCEECTTHHHHHHHHHHTTEEEEEEEEE
T ss_pred             CCCCeEEEEECCCcCCCCchhhhhhccc--cccCCHH------HHHHHHHcCCCCCCccHHHHHHHHHHCCCeEEEEeCC
Confidence            3567899999999998876555433311  1232221      233232110 00000011 22 222238999999999


Q ss_pred             hhh
Q 027444          217 NDE  219 (223)
Q Consensus       217 Qd~  219 (223)
                      .+.
T Consensus       127 ~~~  129 (262)
T 3ocu_A          127 KDS  129 (262)
T ss_dssp             ETT
T ss_pred             Ccc
Confidence            764


No 4  
>3pct_A Class C acid phosphatase; hydrolase, outer membrane; 1.85A {Pasteurella multocida}
Probab=63.26  E-value=1.4  Score=38.13  Aligned_cols=71  Identities=15%  Similarity=0.175  Sum_probs=36.4

Q ss_pred             CCCeEEEEechhhhhhhHHHHHHHHHhhhcCCcccccceeEEEEeecCCChh-cccceEE-Ee-eeccCccEEEEEccch
Q 027444          141 HGKIVVAVDVDEVLGNFVSALNRFIADRYSLNHSVSEYHVYEFFKIWNCSRD-EGKFLLL-LT-SFNDEICIFLLLTSSN  217 (223)
Q Consensus       141 ~~k~vVAVDlDEVLg~Fl~aLnKfhnd~Ygt~~sVSDfhvY~F~KIWncSeE-ES~~~Vh-Fy-~F~~G~~~LvIVTSRQ  217 (223)
                      ..+|.|.+||||||-....-+......  +..++.      ..|.=|--..+ ....-+. |. ....-+++++|||+|.
T Consensus        56 g~~~avVfDIDgTlldn~~y~~~~~~~--~~~f~~------~~w~~wv~~g~~~~~pg~~ell~~L~~~G~~i~ivTgR~  127 (260)
T 3pct_A           56 GKKKAVVVDLDETMIDNSAYAGWQVQS--GQGFSP------KTWTKWVDARQSAAIPGAVEFSNYVNANGGTMFFVSNRR  127 (260)
T ss_dssp             --CEEEEECCBTTTEECHHHHHHHHHH--TCCCCH------HHHHHHHHTTCCEECTTHHHHHHHHHHTTCEEEEEEEEE
T ss_pred             CCCCEEEEECCccCcCChhHHHhhccc--CCCCCH------HHHHHHHHcCCCCCCccHHHHHHHHHHCCCeEEEEeCCC
Confidence            456899999999998876555444311  222222      22333321111 0000000 22 2222389999999997


Q ss_pred             hh
Q 027444          218 DE  219 (223)
Q Consensus       218 d~  219 (223)
                      +.
T Consensus       128 ~~  129 (260)
T 3pct_A          128 DD  129 (260)
T ss_dssp             TT
T ss_pred             cc
Confidence            64


No 5  
>3ef0_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, ALF4, transition state analog, cobalt, magnesium; 2.10A {Schizosaccharomyces pombe}
Probab=52.67  E-value=18  Score=32.58  Aligned_cols=25  Identities=12%  Similarity=0.336  Sum_probs=19.6

Q ss_pred             CCCeEEEEechhhhhhh--HHHHHHHH
Q 027444          141 HGKIVVAVDVDEVLGNF--VSALNRFI  165 (223)
Q Consensus       141 ~~k~vVAVDlDEVLg~F--l~aLnKfh  165 (223)
                      ..|+.+.+||||+|...  -..+..|.
T Consensus        16 ~~k~~LVlDLD~TLvhS~~~~~~~~w~   42 (372)
T 3ef0_A           16 EKRLSLIVDLDQTIIHATVDPTVGEWM   42 (372)
T ss_dssp             HTCEEEEECCBTTTEEEECCTHHHHHH
T ss_pred             CCCCEEEEcCCCCcccccCcCccchhh
Confidence            46888999999999876  23467787


No 6  
>2xp1_A SPT6; transcription, IWS1, histone chaperone, mRNA export; 2.20A {Antonospora locustae}
Probab=49.78  E-value=7.5  Score=31.94  Aligned_cols=21  Identities=29%  Similarity=0.460  Sum_probs=18.6

Q ss_pred             echhhhhhhHHHHHHHHHhhh
Q 027444          149 DVDEVLGNFVSALNRFIADRY  169 (223)
Q Consensus       149 DlDEVLg~Fl~aLnKfhnd~Y  169 (223)
                      ||||++.+++++|++...|-+
T Consensus        79 dLDElI~~yv~pm~~~~~~~~   99 (178)
T 2xp1_A           79 DIDEVISVYVRPILRNLKSIK   99 (178)
T ss_dssp             SHHHHHHHTHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHH
Confidence            899999999999999887554


No 7  
>3qxg_A Inorganic pyrophosphatase; hydrolase, magnesium binding site, NEW YORK research center for structural genomics; HET: TLA; 1.24A {Bacteroides thetaiotaomicron} PDB: 3qu2_A* 3qx7_A 3quq_A* 3r9k_A 3qut_A 3qu9_A* 3qu7_A 3qu5_A 3qyp_A 3quc_A 3qub_A 3qu4_A
Probab=48.15  E-value=10  Score=28.79  Aligned_cols=50  Identities=22%  Similarity=0.218  Sum_probs=21.2

Q ss_pred             cccccCCCCcCCCCCCCCCCCCCCCCeEEEEechhhhhhhHHH----HHHHHHhhhcCCcc
Q 027444          118 ARLVNGRGSSERGNPLGFFDSHLHGKIVVAVDVDEVLGNFVSA----LNRFIADRYSLNHS  174 (223)
Q Consensus       118 ~~~~~g~g~~~~~~~~~f~~~~~~~k~vVAVDlDEVLg~Fl~a----LnKfhnd~Ygt~~s  174 (223)
                      .++.++||....++|.      ......|+.|+|-||.+....    +.+.. +.+|.+..
T Consensus         5 ~~~~~~~~~~~~~~~~------m~~~k~i~fDlDGTL~d~~~~~~~~~~~~~-~~~g~~~~   58 (243)
T 3qxg_A            5 HHHHHSSGLVPRGSHM------RKKLKAVLFDMDGVLFNSMPYHSEAWHQVM-KTHGLDLS   58 (243)
T ss_dssp             -----------------------CCCCEEEECSBTTTBCCHHHHHHHHHHHH-HHTTCCCC
T ss_pred             ccccccCCcccCCCcc------cccCCEEEEcCCCCCCCCHHHHHHHHHHHH-HHhCCCCC
Confidence            4678888777666664      234568999999999776543    33333 34676643


No 8  
>2i7d_A 5'(3')-deoxyribonucleotidase, cytosolic type; hydrolase; HET: DUR; 1.20A {Homo sapiens} PDB: 2jar_A* 2jao_A*
Probab=47.85  E-value=13  Score=28.01  Aligned_cols=37  Identities=27%  Similarity=0.376  Sum_probs=27.3

Q ss_pred             CeEEEEechhhhhhhHHHHHHHHHhhh-cCC-cccccce
Q 027444          143 KIVVAVDVDEVLGNFVSALNRFIADRY-SLN-HSVSEYH  179 (223)
Q Consensus       143 k~vVAVDlDEVLg~Fl~aLnKfhnd~Y-gt~-~sVSDfh  179 (223)
                      ++.|..|+|-||.++.....+..++.+ |.+ ++..++.
T Consensus         2 ~k~viFDlDGTL~Ds~~~~~~~~~~~~~g~~~~~~~~~~   40 (193)
T 2i7d_A            2 SVRVLVDMDGVLADFEAGLLRGFRRRFPEEPHVPLEQRR   40 (193)
T ss_dssp             CEEEEECSBTTTBCHHHHHHHHHHHHSTTSCCCCGGGCC
T ss_pred             CcEEEEECCCcCccchhHHHHHHHHHhcCCCCCCHHHHH
Confidence            467899999999999888888777766 554 3344433


No 9  
>2i33_A Acid phosphatase; HAD superfamily, hydrolase; 1.57A {Bacillus anthracis} PDB: 2i34_A
Probab=42.86  E-value=4.2  Score=33.92  Aligned_cols=25  Identities=16%  Similarity=0.157  Sum_probs=18.0

Q ss_pred             CCCeEEEEechhhhhhhHHHHHHHH
Q 027444          141 HGKIVVAVDVDEVLGNFVSALNRFI  165 (223)
Q Consensus       141 ~~k~vVAVDlDEVLg~Fl~aLnKfh  165 (223)
                      ...+.|.+|+|++|-+...-+..-.
T Consensus        57 ~~~kavifDlDGTLld~~~~~~~~~   81 (258)
T 2i33_A           57 EKKPAIVLDLDETVLDNSPHQAMSV   81 (258)
T ss_dssp             SSEEEEEECSBTTTEECHHHHHHHH
T ss_pred             CCCCEEEEeCcccCcCCHHHHHHHH
Confidence            3467899999999998765444333


No 10 
>4ekj_A Beta-xylosidase; TIM-barrel fold, hemicellulase, hydrolase; 2.50A {Caulobacter vibrioides}
Probab=38.70  E-value=7.8  Score=33.80  Aligned_cols=32  Identities=25%  Similarity=0.598  Sum_probs=21.8

Q ss_pred             hhhhhhHHHHHHHHHhhhcCCcccccceeEEEEeecC
Q 027444          152 EVLGNFVSALNRFIADRYSLNHSVSEYHVYEFFKIWN  188 (223)
Q Consensus       152 EVLg~Fl~aLnKfhnd~Ygt~~sVSDfhvY~F~KIWn  188 (223)
                      +--.+++.+++++..++||.+. +.    --||||||
T Consensus       131 ~~w~~~~~~~~~~~~~RYg~~~-v~----~w~~EvwN  162 (500)
T 4ekj_A          131 GPWRDLIDAFVHHLRARYGVEE-VR----TWFFEVWN  162 (500)
T ss_dssp             HHHHHHHHHHHHHHHHHHCHHH-HH----TSEEEESS
T ss_pred             HHHHHHHHHHHHHHHHhhCccc-cc----eeEEEEEE
Confidence            3456788899999999998751 11    12567776


No 11 
>3nuq_A Protein SSM1, putative nucleotide phosphatase; suppresses the 6-AU sensitivity of transcription elongation II; 1.70A {Saccharomyces cerevisiae} PDB: 3onn_A 3opx_A*
Probab=38.49  E-value=33  Score=26.75  Aligned_cols=31  Identities=23%  Similarity=0.335  Sum_probs=22.6

Q ss_pred             CCeEEEEechhhhhh--------hHHHHHHHHHhhhcCC
Q 027444          142 GKIVVAVDVDEVLGN--------FVSALNRFIADRYSLN  172 (223)
Q Consensus       142 ~k~vVAVDlDEVLg~--------Fl~aLnKfhnd~Ygt~  172 (223)
                      ....|..|+|-+|.+        +..++.++..+.++..
T Consensus        56 ~~k~i~FDlDGTL~d~~~~~~~~~~~~~~~~~~~~~~~~   94 (282)
T 3nuq_A           56 NLKVFFFDIDNCLYKSSTRIHDLMQQSILRFFQTHLKLS   94 (282)
T ss_dssp             CCCEEEECCTTTTSCCCHHHHHHHHHHHHHHHHHCTTSC
T ss_pred             CCCEEEEecCCCcccCCccHHHHHHHHHHHHHHHhcCCC
Confidence            447899999999988        4566666665555555


No 12 
>2ak0_A Alpha-conotoxin MII; alpha-helix, cyclic backbone; NMR {Synthetic}
Probab=34.03  E-value=3.7  Score=25.17  Aligned_cols=18  Identities=33%  Similarity=0.608  Sum_probs=14.8

Q ss_pred             CCceeccccCccccCCCc
Q 027444           35 SDPICKGFHSNVTNNSSD   52 (223)
Q Consensus        35 ~~~~c~~~hs~~~~~~~~   52 (223)
                      +.+.|-+.|||+++.+..
T Consensus         4 snpvchlehsnlcgagga   21 (26)
T 2ak0_A            4 SNPVCHLEHSNLCGAGGA   21 (26)
T ss_dssp             TSHHHHHHTHHHHTTTTT
T ss_pred             CCcceeeecccccccCcc
Confidence            457899999999987764


No 13 
>3ef1_A RNA polymerase II subunit A C-terminal domain phosphatase; CTD, FCPH, BRCT, hydrolase, BEF3, acylphosphate analog, cobalt, magnesium; HET: BFD; 2.15A {Schizosaccharomyces pombe}
Probab=32.11  E-value=58  Score=30.36  Aligned_cols=28  Identities=11%  Similarity=0.300  Sum_probs=20.9

Q ss_pred             CCCCeEEEEechhhhhhh--HHHHHHHHHh
Q 027444          140 LHGKIVVAVDVDEVLGNF--VSALNRFIAD  167 (223)
Q Consensus       140 ~~~k~vVAVDlDEVLg~F--l~aLnKfhnd  167 (223)
                      ...|+...+||||.|..-  -..+.+|..+
T Consensus        23 ~~~Kl~LVLDLDeTLiHs~~~~~~~~~~~~   52 (442)
T 3ef1_A           23 QEKRLSLIVXLDQTIIHATVDPTVGEWMSD   52 (442)
T ss_dssp             HTTCEEEEECCBTTTEEEECCTHHHHHHTC
T ss_pred             hcCCeEEEEeeccceeccccccccchhccC
Confidence            346889999999999764  4556788743


No 14 
>2ajw_A Alpha-conotoxin MII; alpha-helix, cyclic backbone; NMR {Synthetic}
Probab=27.32  E-value=7.8  Score=23.72  Aligned_cols=16  Identities=38%  Similarity=0.711  Sum_probs=12.6

Q ss_pred             CCceeccccCccccCC
Q 027444           35 SDPICKGFHSNVTNNS   50 (223)
Q Consensus        35 ~~~~c~~~hs~~~~~~   50 (223)
                      +.+.|-+.|||+++..
T Consensus         4 snpvchlehsnlcgga   19 (26)
T 2ajw_A            4 SNPVCHLEHSNLCGGA   19 (26)
T ss_dssp             GSHHHHHHTTTGGGTS
T ss_pred             CCcceeeeeccccccc
Confidence            4578999999999643


No 15 
>1q92_A 5(3)-deoxyribonucleotidase; alpha-beta rossman fold, hydrolase; HET: DRM; 1.40A {Homo sapiens} SCOP: c.108.1.8 PDB: 1mh9_A* 1q91_A* 1z4m_A* 1z4i_A* 1z4j_A* 1z4l_A* 1z4k_A* 1z4p_X* 1z4q_A* 2jau_A* 2jaw_A* 3u19_A* 3u13_A 4e88_A
Probab=27.29  E-value=39  Score=25.45  Aligned_cols=28  Identities=32%  Similarity=0.513  Sum_probs=22.9

Q ss_pred             CeEEEEechhhhhhhHHHHHHHHHhhhc
Q 027444          143 KIVVAVDVDEVLGNFVSALNRFIADRYS  170 (223)
Q Consensus       143 k~vVAVDlDEVLg~Fl~aLnKfhnd~Yg  170 (223)
                      ++.|..|+|-||.++.....+..++.+.
T Consensus         4 ~k~viFDlDGTL~Ds~~~~~~~~~~~~~   31 (197)
T 1q92_A            4 ALRVLVDMDGVLADFEGGFLRKFRARFP   31 (197)
T ss_dssp             CEEEEECSBTTTBCHHHHHHHHHHHHCT
T ss_pred             ceEEEEeCCCCCccCcHHHHHHHHHHHh
Confidence            4578999999999999888777766654


No 16 
>4aw7_A GH86A beta-porphyranase; hydrolase, porphyran-hexa-oligosaccharide, complex; HET: GLA GAL L6S AAL; 1.33A {Bacteroides plebeius}
Probab=20.99  E-value=1e+02  Score=30.13  Aligned_cols=58  Identities=19%  Similarity=-0.000  Sum_probs=37.8

Q ss_pred             CCCCCCCCCCCCCCeEEEEec--------h-hhhhhhHHHHHHHHHhhhcCCcccccceeEEEEeecCCChh
Q 027444          130 GNPLGFFDSHLHGKIVVAVDV--------D-EVLGNFVSALNRFIADRYSLNHSVSEYHVYEFFKIWNCSRD  192 (223)
Q Consensus       130 ~~~~~f~~~~~~~k~vVAVDl--------D-EVLg~Fl~aLnKfhnd~Ygt~~sVSDfhvY~F~KIWncSeE  192 (223)
                      ..-++||+....++..+.=|+        | .-.+.-+.++++|.++.|+.     |--.=.||||||=+--
T Consensus        83 ~~~~~ypd~~~~~~~~~~~~~v~t~hP~~~~~~w~~~~~a~a~~~a~~~~~-----~e~~p~y~Ev~NEP~v  149 (591)
T 4aw7_A           83 HEVGKYPQMKPYSGNISVKRYIATEHPYVQHIQGGIDVQAAGAWSAEYYSN-----SELVPEFFEPLNEPFV  149 (591)
T ss_dssp             CSTTCCCCCCCCCSCCEEEEEEEECCCCTTTCCTTCCHHHHHHHHHHHHHT-----CSEEEEEEECSSSCGG
T ss_pred             CCCCCCCChhHHhhccCcCcEEEccCCchhhhhhhhhHHHHHHHHHHHhcc-----CCCCceeEEeccCCCc
Confidence            346778865544433322111        1 12555689999999999993     3467789999997763


Done!