HHsearch alignment for GI: 254780289 and conserved domain: PRK12537

>PRK12537 RNA polymerase sigma factor; Provisional.
Probab=98.81  E-value=5.9e-07  Score=73.87  Aligned_cols=176  Identities=12%  Similarity=0.185  Sum_probs=119.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHH
Q ss_conf             26889999998765332112468999875557899988752235677788754436799998874385457312010289
Q gi|254780289|r  423 SISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMW  502 (682)
Q Consensus       423 ~i~ElK~i~r~I~~ge~e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~  502 (682)
T Consensus         6 ~p~d~e~ll~~~~~GD~---~Af~~Ly~~y~~~l~~~~~~~~~d~~~AeDivQe~Fl~~~~~~~~~~~~~~~-~~---~-   77 (184)
T PRK12537          6 APFDYEACLQACARGER---RALQRLYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTKAASFDAARGS-AR---G-   77 (184)
T ss_pred             CCCCHHHHHHHHHHCCH---HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCC-HH---H-
T ss_conf             99999999999995889---9999999999999999999992999999999999999999860416844263-99---9-


Q ss_pred             HHHHHHHHHHHHCCCEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             89999999997228704614205889899999999987760889997899987099989999999860898755363588
Q gi|254780289|r  503 WVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGD  582 (682)
Q Consensus       503 ~i~~~i~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~  582 (682)
T Consensus        78 WL~~Iarn~~----------------~~~lR~~~r~-------~~~~~~~~------------------~~~~~~-----  111 (184)
T PRK12537         78 WIYSVTRHLA----------------LNTLRDTRRE-------VVLDDDAS------------------EQATAQ-----  111 (184)
T ss_pred             HHHHHHHHHH----------------HHHHHHHCCC-------CCCCCHHH------------------HHCCCC-----
T ss_conf             9999999999----------------9999985065-------66651002------------------101346-----


Q ss_pred             CCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             99860475623898899899999999999999997329988999999981879867468899989966789999999999
Q gi|254780289|r  583 EDTSHLGDFIEDKNAVSPLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAK  662 (682)
Q Consensus       583 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~  662 (682)
T Consensus       112 ----------~~~~~~~---~~~~~~~~~~l~~~l~~L~~~~r~~i~l~~----~eg~s~~EIA~~l~is~~TVk~rl~r  174 (184)
T PRK12537        112 ----------GWQEIID---DFDLWVNSGKIHRCLEQLEPARRNCILHAY----VDGCSHAEIAQRLGAPLGTVKAWIKR  174 (184)
T ss_pred             ----------CCCCCCC---HHHHHHHHHHHHHHHHHCCHHHHHHHHHHH----HCCCCHHHHHHHHCCCHHHHHHHHHH
T ss_conf             ----------7777556---798999999999999809998999999988----43999999999989299999999999


Q ss_pred             HHHHHCC
Q ss_conf             9998329
Q gi|254780289|r  663 AIRKLKH  669 (682)
Q Consensus       663 a~~~l~~  669 (682)
T Consensus       175 A~~~LR~  181 (184)
T PRK12537        175 SLKALRE  181 (184)
T ss_pred             HHHHHHH
T ss_conf             9999998