HHsearch alignment for GI: 254780289 and conserved domain: PRK09648
>PRK09648 RNA polymerase sigma factor SigD; Reviewed.
Probab=99.04 E-value=7.6e-08 Score=80.91 Aligned_cols=175 Identities=19% Similarity=0.263 Sum_probs=125.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC----CCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEH
Q ss_conf 26889999998765332112468999875557899988752235----67778875443679999887438545731201
Q gi|254780289|r 423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNR----GLQFLDLIQEGNIGLMKAAEKFDWCLGYKFST 498 (682)
Q Consensus 423 ~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~----~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~t 498 (682)
T Consensus 5 ~~~~l~~Li~~a~~GD~~---Af~~L~~~~~~~v~r~~~~~l~~~~~~~~dAeDl~Qe~fl~~~~~l~~f~~-~~~~f~~ 80 (187)
T PRK09648 5 AGEELDALVAEAVAGDRR---ALREVLETIHPLVVRYCRARLGTVERSGLSADDVAQEVCLAVITALPRYRD-QGRPFLA 80 (187)
T ss_pred CHHHHHHHHHHHHHCCHH---HHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC-CCCCHHH
T ss_conf 217899999999845899---999999999999999999997144587643999999999999983766266-7784999
Q ss_pred HHHHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf 02898999999999722870461420588989999999998776088999789998709998999999986089875536
Q gi|254780289|r 499 YAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLET 578 (682)
Q Consensus 499 ya~~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~ 578 (682)
T Consensus 81 ----Wl~-~Ia~n~---------------~~d~~R~~~--------r~~~-----------------------~------ 103 (187)
T PRK09648 81 ----FVY-GIAAHK---------------VADAHRAAG--------RDKA-----------------------Y------ 103 (187)
T ss_pred ----HHH-HHHHHH---------------HHHHHHHHH--------CCCC-----------------------C------
T ss_conf ----999-999999---------------999999874--------6764-----------------------3------
Q ss_pred CCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHH
Q ss_conf 35889986047562389889989999999999999999732998899999998187986746889998996678999999
Q gi|254780289|r 579 PIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQ 658 (682)
Q Consensus 579 ~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rq 658 (682)
T Consensus 104 ~~~~-----~~~~~--~~~~~pe~~~~~~e~~~~l~~~l~~Lp~~~R~vl~L~~----~~g~s~~EIA~~lg~s~~tVk~ 172 (187)
T PRK09648 104 PTEE-----VPERP--SDEAGPEQRALEAESSARMRELLEILPEKQREILILRV----VVGLSAEETAEAVGSTPGAVRV 172 (187)
T ss_pred CCCC-----CCCCC--CCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHH
T ss_conf 2112-----33347--87788589999899999999999839999999999999----8499999999998939999999
Q ss_pred HHHHHHHHHCC
Q ss_conf 99999998329
Q gi|254780289|r 659 IEAKAIRKLKH 669 (682)
Q Consensus 659 i~~~a~~~l~~ 669 (682)
T Consensus 173 ~l~RA~~~Lr~ 183 (187)
T PRK09648 173 AQHRALSRLRA 183 (187)
T ss_pred HHHHHHHHHHH
T ss_conf 99999999999