HHsearch alignment for GI: 254780611 and conserved domain: PRK09648
>PRK09648 RNA polymerase sigma factor SigD; Reviewed.
Probab=99.76 E-value=3.8e-16 Score=127.42 Aligned_cols=179 Identities=17% Similarity=0.238 Sum_probs=127.0
Q ss_pred CHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCC----CCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf 989999999999982859999999994307787565555799----9988899999988899898621853456899975
Q gi|254780611|r 30 EKQEEYVLAKRYREHGDLSAAHRLVTSHLRLVVKIAMGYRGY----GLPISEVVSEGNIGLMQAVKKFDPERGFRLATYS 105 (302)
Q Consensus 30 t~eee~~l~~~~~~~gd~~Ar~~Li~~nlrlV~~iA~~y~~~----g~~~~DLiQeG~iGLi~Ai~kFDp~kG~~FsTYA 105 (302)
T Consensus 5 ~~~~l~~Li~~a~-~GD~~Af~~L~~~~~~~v~r~~~~~l~~~~~~~~dAeDl~Qe~fl~~~~~l~~f~~-~~~~f~~Wl 82 (187)
T PRK09648 5 AGEELDALVAEAV-AGDRRALREVLETIHPLVVRYCRARLGTVERSGLSADDVAQEVCLAVITALPRYRD-QGRPFLAFV 82 (187)
T ss_pred CHHHHHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC-CCCCHHHHH
T ss_conf 2178999999998-45899999999999999999999997144587643999999999999983766266-778499999
Q ss_pred HHHHHHHHHHHHHCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCC
Q ss_conf 77899999985320246001102300358999999997887866244788824677888618983211000000122343
Q gi|254780611|r 106 MWWIKAAMQEYILRSWSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDES 185 (302)
Q Consensus 106 ~~wIr~~I~~~i~~~~~~IRiP~~~~~r~l~~~~rk~~~~~~~~~~~~~~~~~~~eiA~~Lgis~~~v~~l~~~~~~~~S 185 (302)
T Consensus 83 ~~Ia~n~~~d~~----------------------R~~~r~--------~~~~~--------------------------- 105 (187)
T PRK09648 83 YGIAAHKVADAH----------------------RAAGRD--------KAYPT--------------------------- 105 (187)
T ss_pred HHHHHHHHHHHH----------------------HHHHCC--------CCCCC---------------------------
T ss_conf 999999999999----------------------987467--------64321---------------------------
Q ss_pred HHHHCCCCCCCCCCHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCC
Q ss_conf 35520232345320000012356870565566666667779999996219999999999982788888989999997789
Q gi|254780611|r 186 LNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRERRIFEARRLQENPVTLENLSSEFEVS 265 (302)
Q Consensus 186 Ld~~i~~~d~~~~~~~d~l~~~~~~~~~~~~e~~e~~~~~~~L~~~l~~L~~rEr~II~~ry~~~~~~Tl~EIa~~lgiS 265 (302)
T Consensus 106 -~~-~~----------~-~~~~~~~pe~~~~~~----e~~~~l~~~l~~Lp~~~R~vl~L~~~~g--~s~~EIA~~lg~s 166 (187)
T PRK09648 106 -EE-VP----------E-RPSDEAGPEQRALEA----ESSARMRELLEILPEKQREILILRVVVG--LSAEETAEAVGST 166 (187)
T ss_pred -CC-CC----------C-CCCCCCCHHHHHHHH----HHHHHHHHHHHHCCHHHHHHHHHHHHCC--CCHHHHHHHHCCC
T ss_conf -12-33----------3-478778858999989----9999999999839999999999999849--9999999998939
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999999999999999999997
Q gi|254780611|r 266 RERVRQIEARAFKKVQESIQK 286 (302)
Q Consensus 266 ~eRVrQI~~~AL~kLR~~l~~ 286 (302)
T Consensus 167 ~~tVk~~l~RA~~~Lr~~lE~ 187 (187)
T PRK09648 167 PGAVRVAQHRALSRLRAEIEQ 187 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHCC
T ss_conf 999999999999999998659