HHsearch alignment for GI: 254780289 and conserved domain: PRK05657
>PRK05657 RNA polymerase sigma factor RpoS; Validated.
Probab=100.00 E-value=0 Score=645.02 Aligned_cols=234 Identities=41% Similarity=0.739 Sum_probs=229.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCC
Q ss_conf 68999875557899988752235677788754436799998874385457312010289899999999972287046142
Q gi|254780289|r 444 AKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPV 523 (682)
Q Consensus 444 AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~ 523 (682)
T Consensus 90 Ar~~LI~sNLRLVvsIAkkY~~~Gl~l~DLIQEGniGLikAveKFDp~rG~RFSTYA~WWIRq~I~raI~~~~r~IRlP~ 169 (328)
T PRK05657 90 ARQRMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPV 169 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 99999998189999999855689989899998868999999997197669984230099999999999996577777561
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHH
Q ss_conf 05889899999999987760889997899987099989999999860898755363588998604756238988998999
Q gi|254780289|r 524 HMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDS 603 (682)
Q Consensus 524 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~ 603 (682)
T Consensus 170 ~~~~~l~~i~ra~~~l~~~~gr~pt~eEIA~~lg~~~~~v~~~l~~~~~~~SLD~pv~~d~~~tl~d~l~D~~~~~pd~~ 249 (328)
T PRK05657 170 HVVKELNVYLRAARELEHKLDHEPSAEEIAELLDKPVDDVSRMLALNERITSLDAPLGGDPEKSLLDILADDQENGPEDT 249 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCHHHH
T ss_conf 19999999999999999984899989999999695999999999745876344453589985117888627789999999
Q ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCHHHHHHHH
Q ss_conf 99999999999997329988999999981879867468899989966789999999999999832967778756
Q gi|254780289|r 604 AIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLR 677 (682)
Q Consensus 604 ~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~~~~~~~l~ 677 (682)
T Consensus 250 ~~~~~l~~~l~~~L~~L~~REr~II~~RfGL~~~e~~TL~EIg~~lgvSRERVRQIE~~AL~KLR~~l~~~~l~ 323 (328)
T PRK05657 250 TQDDDLKQSIVKWLFELNDKQREVIERRFGLNGYEAATLEEVAREIGLTRERVRQIQVEALRRLREILQTQGLS 323 (328)
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 99999999999998069999999999980889989605999998969799999999999999987999986997