HHsearch alignment for GI: 254780289 and conserved domain: PRK12527
>PRK12527 RNA polymerase sigma factor; Reviewed.
Probab=98.27 E-value=0.0001 Score=56.11 Aligned_cols=154 Identities=12% Similarity=0.156 Sum_probs=101.0
Q ss_pred HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEEECCCHHHHHHHHHH
Q ss_conf 78999887522356777887544367999988743854573120102898999999999722870461420588989999
Q gi|254780289|r 454 RLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVV 533 (682)
Q Consensus 454 r~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~ 533 (682)
T Consensus 6 ~~L~~~~~~~~~~~~~AeDivQd~F~k~~~---~~~~~~~~~~---~a~L~~ia~N~~~d-~----------------~R 62 (159)
T PRK12527 6 RELLRFLSARLGNRQAAEDVAHDAYLRVLE---RSSSAQIEHP---RAFLYRTALNLVVD-R----------------HR 62 (159)
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHHH---HCCCCCCCCH---HHHHHHHHHHHHHH-H----------------HH
T ss_conf 999999999969999999999999999998---6663554569---99999999999999-9----------------99
Q ss_pred HHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHH
Q ss_conf 99999877608899978999870999899999998608987553635889986047562389889989999999999999
Q gi|254780289|r 534 RTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSPLDSAIQANLRETT 613 (682)
Q Consensus 534 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~ 613 (682)
T Consensus 63 ~~~---------------------------------~~~~~~~~~~-~~---------~~~~~~~~~~~~~~~~e~~~~l 99 (159)
T PRK12527 63 RHR---------------------------------VRQAEPLEVL-DE---------EERLHSPSPQTRLDLGQRLALL 99 (159)
T ss_pred HHH---------------------------------HCCCCCHHHH-CC---------CCCCCCCCHHHHHHHHHHHHHH
T ss_conf 987---------------------------------5145530211-10---------1012489869999999999999
Q ss_pred HHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHCC
Q ss_conf 999732998899999998187986746889998996678999999999999983296777875665179
Q gi|254780289|r 614 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSFLDG 682 (682)
Q Consensus 614 ~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~~~~~~~l~~~~~~ 682 (682)
T Consensus 100 ~~al~~Lp~~~R~v~~L~~----~egls~~EIA~~lgis~~tVk~~l~rA~k~Lr~-----~L~~~e~g 159 (159)
T PRK12527 100 QRALAELPPICRESFLLRK----LEGLSHQQIAEHLGISRSLVEKHIVNAMKHCRV-----RMRQWESG 159 (159)
T ss_pred HHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH-----HHHHHHCC
T ss_conf 9999869999989998898----739799999999891999999999999999999-----99977673