HHsearch alignment for GI: 254781218 and conserved domain: PRK09210
>PRK09210 RNA polymerase sigma factor RpoD; Validated.
Probab=92.45 E-value=0.86 Score=24.72 Aligned_cols=130 Identities=14% Similarity=0.148 Sum_probs=55.9
Q ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHCCCHHHHHHHHCCCCC-CCHHHHHHHHHHHCCCHHHHHCCC
Q ss_conf 00015668999999999999999985--998899999848999999988779988-899999999998289999961453
Q gi|254781218|r 18 TLIITPEIRQYWKDVGTRIKDIRKAN--NKTQKEMAIGANQLESAVNLFENGMCS-TSIRYALYLRNEYEISFDWIYDGE 94 (205)
Q Consensus 18 ~~~~~~~~~~~~~~iG~rik~lR~~~--gltQ~elA~~~gis~~~is~~E~G~~~-psi~~l~~la~~~~vs~d~Ll~ge 94 (205)
T Consensus 205 ~IRiPvh~~e~~~kl~r~~r~L~q~lGrePt~eEIA~~lgi~~e~V~~i~~~~~~~~SLd~p--vg~e~~s~l~d~i~D~ 282 (368)
T PRK09210 205 TIRIPVHMVETINKLIRVQRQLLQELGRDPTPEEIAEEMDMPPEKVREILKIAQEPVSLETP--IGEEDDSHLGDFIEDQ 282 (368)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCC--CCCCCCCHHHHHHCCC
T ss_conf 51354249999999999999999983899988999989499899999999853888566886--7887755287552489
Q ss_pred CCCCCCCCCCC---HHHHHH--HHHHHHHHHH-HHHCC------CCHHHHHHHHCCCHHHHHHHHCC
Q ss_conf 22100002321---345546--7779999999-99729------83899999977999999997414
Q gi|254781218|r 95 VIDRRYEDVTN---KKRLDP--YAIGARLKSI-RKDKG------MSQIEFGKLLGMPNSTLSNYEQG 149 (205)
Q Consensus 95 ~~~~~~~~~~~---~~~~d~--~~iG~rLk~l-R~~~g------lsq~elA~~lgis~~tis~~E~g 149 (205)
T Consensus 283 ~~~~p~e~~~~~~l~~~l~~~L~~L~~REr~Il~~RfGL~~~~~~TLeEIg~~lgvSRERVRQIE~k 349 (368)
T PRK09210 283 DATSPADHAAYELLKEQLEEVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAK 349 (368)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHH
T ss_conf 9999899999999999999998179999999999975999689614999998969798999999999