HHsearch alignment for GI: 254780289 and conserved domain: PRK12543
>PRK12543 RNA polymerase sigma factor; Provisional.
Probab=99.02 E-value=1.3e-07 Score=79.13 Aligned_cols=171 Identities=16% Similarity=0.258 Sum_probs=125.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHH
Q ss_conf 89999998765332112468999875557899988752235677788754436799998874385457312010289899
Q gi|254780289|r 426 EFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVK 505 (682)
Q Consensus 426 ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~ 505 (682)
T Consensus 5 d~~~Li~~~~~Gd~~---Af~~Ly~~y~~~l~~~~~~~~~d~~~AeD~vQe~Flk~~~~~~~~~~~~~--~~~----WL~ 75 (190)
T PRK12543 5 DYKHLIQLTLSGNKE---AYSELYDVTIQEVYKTVHFLIEDKTDVDDVVQEVYIQLYESLRKYDSEKP--FRP----WLI 75 (190)
T ss_pred CHHHHHHHHHHCCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCCCC--HHH----HHH
T ss_conf 899999999956699---99999999999999999999099999999999999999999987188886--899----999
Q ss_pred HHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 99999997228704614205889899999999987760889997899987099989999999860898755363588998
Q gi|254780289|r 506 QAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDT 585 (682)
Q Consensus 506 ~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~ 585 (682)
T Consensus 76 ~ia~n~~~~~~r----------------~~~~~~----------------------------------~~~~~-----~- 99 (190)
T PRK12543 76 GLVIKQIHSYRR----------------KRWMRL----------------------------------RIFKK-----A- 99 (190)
T ss_pred HHHHHHHHHHHH----------------HHHHHC----------------------------------CCCCC-----H-
T ss_conf 999999999999----------------875003----------------------------------41220-----0-
Q ss_pred CEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf 60475623898899899999999999999997329988999999981879867468899989966789999999999999
Q gi|254780289|r 586 SHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIR 665 (682)
Q Consensus 586 ~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~ 665 (682)
T Consensus 100 ----~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lp~~~R~vi~L~~----~~g~s~~EIA~~l~is~~tVk~rl~rA~k 171 (190)
T PRK12543 100 ----EEQRKPVQIDFSNDLLSKISNQKLIELIHKLPYKLKQVIILRY----LHDYSQEEVAQILHIPIGTVKSRIHAALK 171 (190)
T ss_pred ----HHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf ----1001555688268999999999999999849999999999999----85999999999989399999999999999
Q ss_pred HHCC
Q ss_conf 8329
Q gi|254780289|r 666 KLKH 669 (682)
Q Consensus 666 ~l~~ 669 (682)
T Consensus 172 ~LR~ 175 (190)
T PRK12543 172 KLRQ 175 (190)
T ss_pred HHHH
T ss_conf 9999