HHsearch alignment for GI: 254780289 and conserved domain: PRK11922
>PRK11922 RNA polymerase sigma factor; Provisional.
Probab=99.03 E-value=1e-07 Score=79.79 Aligned_cols=186 Identities=18% Similarity=0.259 Sum_probs=136.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHH
Q ss_conf 21126889999998765332112468999875557899988752235677788754436799998874385457312010
Q gi|254780289|r 420 TGISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTY 499 (682)
Q Consensus 420 ~gl~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~ty 499 (682)
T Consensus 10 ~~~~~~~D~eLi~~~~~GD~---~Af~~L~~ry~~~ly~~a~~~~~~~~dAEDlvQevFlk~~~~l~~f~~~~~--f~-- 82 (231)
T PRK11922 10 TPLSAADDAELVARVLAGDE---AAFEQLMRRHNRRLYRLARAILRDDAEAEDVVQEAYLRAFRALARFRGDAS--LS-- 82 (231)
T ss_pred CCCCCCCHHHHHHHHHHCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHCCCCCCC--HH--
T ss_conf 99999759999999995659---999999999999999999999299999999999999999987530577565--99--
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCC
Q ss_conf 28989999999997228704614205889899999999987760889997899987099989999999860898755363
Q gi|254780289|r 500 AMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETP 579 (682)
Q Consensus 500 a~~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~ 579 (682)
T Consensus 83 -tWL~~Ia~N~~l-----------------d~lRk~~~~~---------------------------------~~~~~~- 110 (231)
T PRK11922 83 -TWLSRIVLNEAL-----------------GRLRRRRRDV---------------------------------IELRLA- 110 (231)
T ss_pred -HHHHHHHHHHHH-----------------HHHHHHHCCC---------------------------------CCCCCC-
T ss_conf -999999999999-----------------9999874122---------------------------------311000-
Q ss_pred CCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHH
Q ss_conf 58899860475623898899899999999999999997329988999999981879867468899989966789999999
Q gi|254780289|r 580 IGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQI 659 (682)
Q Consensus 580 ~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi 659 (682)
T Consensus 111 -~~~~~~~~~~~~~~~~~~~pe~~~~~~E~~~~l~~al~~Lp~~~R~v~~L~~----~eglS~~EIA~~Lgis~~TVKsr 185 (231)
T PRK11922 111 -TESEEGEEIEFPDADPAEDPEDAAARREIRALLERAIDALPDAFRAVFVLRV----VEELSVEETAQALGLPEETVKTR 185 (231)
T ss_pred -CCCCCCHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHH
T ss_conf -1233210100233567899999999999999999999809999999999999----93999999999989399999999
Q ss_pred HHHHHHHHCC
Q ss_conf 9999998329
Q gi|254780289|r 660 EAKAIRKLKH 669 (682)
Q Consensus 660 ~~~a~~~l~~ 669 (682)
T Consensus 186 L~RArk~LRe 195 (231)
T PRK11922 186 LHRARRLLRE 195 (231)
T ss_pred HHHHHHHHHH
T ss_conf 9999999999