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