HHsearch alignment for GI: 254780289 and conserved domain: PRK07405
>PRK07405 RNA polymerase sigma factor SigD; Validated.
Probab=100.00 E-value=0 Score=645.57 Aligned_cols=239 Identities=44% Similarity=0.798 Sum_probs=232.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHHHHHHHCCCEE
Q ss_conf 11246899987555789998875223567778875443679999887438545731201028989999999997228704
Q gi|254780289|r 440 EASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTI 519 (682)
Q Consensus 440 e~~~AK~~l~~anlr~v~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~~~~~~g~~f~tya~~~i~~~i~~~~~~~~~~~ 519 (682)
T Consensus 79 ~g~~A~~~lv~~NLRLVv~iAk~y~~~gl~~~DLIQEGniGLi~AvekFDp~rG~rFSTYA~wWIrq~I~r~i~~~~r~I 158 (318)
T PRK07405 79 EGEAAKRKMVEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTI 158 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEHHHHHHHHHHHHHHHCCCCC
T ss_conf 27999999999819999999986657997988999986899999999709765980222009999999999999769851
Q ss_pred ECCCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCC
Q ss_conf 61420588989999999998776088999789998709998999999986089875536358899860475623898899
Q gi|254780289|r 520 RIPVHMRDKIHKVVRTARRMSNKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVS 599 (682)
Q Consensus 520 r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~d~~~~~ 599 (682)
T Consensus 159 RlP~~~~~~~~ki~~~~~~L~~~lGr~Pt~~EIAe~lgi~~e~V~~~l~~~~~~~SLD~~v~d~~~~~l~dll~D~~-~~ 237 (318)
T PRK07405 159 RLPIHITEKLNKIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYLERARQPLSLDLRVGDNQDTELGELLEDDG-AS 237 (318)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHCCCC-CC
T ss_conf 68778999999999999999987189864899998859999999999998078867688889998640566754788-98
Q ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf 89999999999999999732998899999998187986746889998996678999999999999983296777875665
Q gi|254780289|r 600 PLDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLKHPSRSKKLRSF 679 (682)
Q Consensus 600 ~~~~~~~~~~~~~~~~~l~~l~~re~~v~~~r~g~~~~~~~tl~e~~~~~~~~~er~rqi~~~a~~~l~~~~~~~~l~~~ 679 (682)
T Consensus 238 pe~~~~~~~l~~~L~~~L~~L~eREr~II~lRfGl~~~~~~TL~EIg~~lgvSrERVRQIE~~AL~KLR~--~~~~l~~y 315 (318)
T PRK07405 238 PEDFATQSSLRRDLERLMADLTPQQKEVIALRFGLEDGQPLTLAKIGERLNISRERVRQIEREALSKLRK--RKANIQEY 315 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH--HHHHHHHH
T ss_conf 7999999999999999996299989999999807789897479999989795999999999999999987--28888998
Q ss_pred HC
Q ss_conf 17
Q gi|254780289|r 680 LD 681 (682)
Q Consensus 680 ~~ 681 (682)
T Consensus 316 l~ 317 (318)
T PRK07405 316 LA 317 (318)
T ss_pred HC
T ss_conf 63