HHsearch alignment for GI: 254780289 and conserved domain: PRK12540
>PRK12540 RNA polymerase sigma factor; Provisional.
Probab=98.14 E-value=0.00039 Score=51.63 Aligned_cols=155 Identities=14% Similarity=0.104 Sum_probs=100.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECC
Q ss_conf 46899987555789998875223567778875443679999887438545731201028989999999997228704614
Q gi|254780289|r 443 IAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIP 522 (682)
Q Consensus 443 ~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~ 522 (682)
T Consensus 5 ~~f~~~~l~~~P~L~~fa~~l~~n~~dAEDlvQEtflk~~~~~~~~~~~--~~~~tW---L~~--IarN~~--------- 68 (181)
T PRK12540 5 DSLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPG--SNLPAW---LFT--ILRNLF--------- 68 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCC--CCHHHH---HHH--HHHHHH---------
T ss_conf 8899999998799999999993999999999999999999849875987--624899---999--999999---------
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHH
Q ss_conf 20588989999999998776088999789998709998999999986089875536358899860475623898899899
Q gi|254780289|r 523 VHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLD 602 (682)
Q Consensus 523 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~ 602 (682)
T Consensus 69 ------~~~~Rk~--------~r~~~~~----------------------------------~~~~~~~~~~--~~~~~~ 98 (181)
T PRK12540 69 ------RSDYRKR--------RREVEDA----------------------------------DGSYAKTLKS--QPGQNA 98 (181)
T ss_pred ------HHHHHHH--------CCCCCCC----------------------------------CCCCCCCCCC--CCCHHH
T ss_conf ------9999983--------5766643----------------------------------2110001468--997356
Q ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCHH
Q ss_conf 999999999999997329988999999981879867468899989966789999999999999832967
Q gi|254780289|r 603 SAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPS 671 (682)
Q Consensus 603 ~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~~~ 671 (682)
T Consensus 99 ~~----~~~~l~~al~~Lp~~~R~vl~L~~----~egls~~EIA~iL~is~gTVKsRL~RAr~kLr~~L 159 (181)
T PRK12540 99 HL----EFEEFRAALEKLPQDQREALILVG----ASGFSYEDAAAICGCAVGTIKSRVNRARSKLSALL 159 (181)
T ss_pred HH----HHHHHHHHHHCCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 77----899999999819999989988799----80999999999989499999999999999999998