HHsearch alignment for GI: 254780289 and conserved domain: PRK12547
>PRK12547 RNA polymerase sigma factor; Provisional.
Probab=98.32 E-value=0.00011 Score=55.82 Aligned_cols=155 Identities=12% Similarity=0.091 Sum_probs=103.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf 12468999875557899988752235677788754436799998874385457312010289899999999972287046
Q gi|254780289|r 441 ASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 (682)
Q Consensus 441 ~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r 520 (682)
T Consensus 4 ~~~~F~~l~~~~~p~L~~~a~~l~~~~~~AeDlvQe~flk~~~~~~~~~~~--~~~~~Wl---~~IarN~~~-------- 70 (164)
T PRK12547 4 TSKNFKQELLAALPSLRAFAVSLSSKHDKADDLVQDTLMKAWAKQDSFQPG--TNLKAWL---FTILRNEFY-------- 70 (164)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHHH---HHHHHHHHH--------
T ss_conf 799999999998999999999994999999999999999999988876998--8699999---999999999--------
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCH
Q ss_conf 14205889899999999987760889997899987099989999999860898755363588998604756238988998
Q gi|254780289|r 521 IPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 (682)
Q Consensus 521 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~ 600 (682)
T Consensus 71 ---------d~~Rk--------~~r~~~~~~----------------------------------~~---~~~~~~~~~~ 96 (164)
T PRK12547 71 ---------SQMRK--------RGREVQDSD----------------------------------GV---FTARLAVHPA 96 (164)
T ss_pred ---------HHHHH--------HCCCCCCCC----------------------------------CC---CCCCCCCCCH
T ss_conf ---------99997--------278776521----------------------------------01---1012568940
Q ss_pred HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCC
Q ss_conf 999999999999999973299889999999818798674688999899667899999999999998329
Q gi|254780289|r 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKH 669 (682)
Q Consensus 601 ~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~ 669 (682)
T Consensus 97 ~~~~--~~-~~~l~~al~~Lp~~~r~v~~L~~----~~g~s~~EIA~~lgis~~tVksrl~rAr~~Lr~ 158 (164)
T PRK12547 97 QYGS--LD-LQDFRKALNLLPADQREAIILIG----ASGFSYEEAAEICGCAVGTIKSRVSRARNRLQE 158 (164)
T ss_pred HHHH--HH-HHHHHHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
T ss_conf 2436--89-99999999858999999999899----849999999999893999999999999999999