HHsearch alignment for GI: 254780289 and conserved domain: PRK07598
>PRK07598 RNA polymerase sigma factor SigC; Validated.
Probab=100.00 E-value=0 Score=732.38 Aligned_cols=254 Identities=46% Similarity=0.789 Sum_probs=241.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHH
Q ss_conf 11268899999987653321124689998755578999887522356777887544367999988743854573120102
Q gi|254780289|r 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYA 500 (682)
Q Consensus 421 gl~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya 500 (682)
T Consensus 155 ~~~~~el~~~---~----~~G~~Ar~kLI~aNLRLVVsIAkkY~~rGl~l~DLIQEGniGLirAVEKFDp~rG~RFSTYA 227 (410)
T PRK07598 155 KLTVEELEQI---Q----KQGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYA 227 (410)
T ss_pred CCCHHHHHHH---H----HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEE
T ss_conf 1469999999---9----99999999999998999999998657899898999987489999999970965597257621
Q ss_pred HHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 89899999999972287046142058898999999999877608899978999870999899999998608987553635
Q gi|254780289|r 501 MWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPI 580 (682)
Q Consensus 501 ~~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~ 580 (682)
T Consensus 228 ~WWIRQaI~RaI~~~~r~IRlP~h~~e~l~ki~r~~r~L~q~lGR~Pt~eEIA~~lg~s~e~V~~~l~~~~~~vSLd~pv 307 (410)
T PRK07598 228 YWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQVREVLLRVPRSVSLETKV 307 (410)
T ss_pred HHHHHHHHHHHHHHHCCEECCCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCC
T ss_conf 89999999999998088020460299999999999999998759999799999880999999999998727885536788
Q ss_pred CCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHH
Q ss_conf 88998604756238988998999999999999999973299889999999818798674688999899667899999999
Q gi|254780289|r 581 GDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 (682)
Q Consensus 581 ~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~ 660 (682)
T Consensus 308 g~d~d~~l~dll~~~~-~~pee~~~~~~l~~~L~~lL~~L~~REr~IL~lRfGL~dg~~~TL~EIG~~lgISRERVRQIE 386 (410)
T PRK07598 308 GKDKDTELGDLLETDD-VSPEEMLMRESLQRDLQQLLADLTSRERDVIRMRFGLADGRTYSLAEIGRALDLSRERVRQIE 386 (410)
T ss_pred CCCCCCCHHHHHCCCC-CCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCHHHHHHHH
T ss_conf 8888641888744589-998999999999999999983699999999999648999796689999989796999999999
Q ss_pred HHHHHHHCCHHHHHHHHHHHCC
Q ss_conf 9999983296777875665179
Q gi|254780289|r 661 AKAIRKLKHPSRSKKLRSFLDG 682 (682)
Q Consensus 661 ~~a~~~l~~~~~~~~l~~~~~~ 682 (682)
T Consensus 387 ~kAL~KLR~p~r~~~Lr~yl~~ 408 (410)
T PRK07598 387 AKALQKLRQPKRRNRIRDYLEL 408 (410)
T ss_pred HHHHHHHCCCHHHHHHHHHHHH
T ss_conf 9999996773778999999872