HHsearch alignment for GI: 254780619 and conserved domain: PRK10689

>PRK10689 transcription-repair coupling factor; Provisional.
Probab=100.00  E-value=2.2e-41  Score=335.59  Aligned_cols=314  Identities=22%  Similarity=0.311  Sum_probs=259.3

Q ss_pred             CCCC-CCCHHHHHHHHHHHHHHCCC-CCEEEEECCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHCCC-
Q ss_conf             4666-68837899999998752048-96199844753157999999999985146847997152100134455543038-
Q gi|254780619|r  194 FSLP-ILDKNQQDVVEQVVPLCTKG-FAVSLISGVTGSGKTEVYLEIVAAVLHLGKQVLILLPEISLTSAILERFQKRF-  270 (731)
Q Consensus       194 ~~~~-~Lt~eQ~~a~~~i~~~~~~~-f~~~LL~GvTGSGKTEVYl~li~~~L~~GkqvLiLvPEI~Lt~Q~~~rl~~rF-  270 (731)
T Consensus       595 ~~FpyeET~DQl~AI~eV~~DMes~~PMDRLiCGDVGfGKTEVA~RAAFkav~~gkQVavlvPTTiLA~QH~~tF~~Rf~  674 (1148)
T PRK10689        595 DSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFA  674 (1148)
T ss_pred             HCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             60999787689999999987763886774156768888779999999999996398089983662237999999998764


Q ss_pred             --CCEEEEEECCCCCHHHHHHHHHHHCCCCEEEEECCHHHH---HHHCCCEEEEEEECCCCCCHHCCCCCCCHHHHHHHH
Q ss_conf             --976899623557235667899997199739994001211---001000136774055321000024432248999997
Q gi|254780619|r  271 --GVKPAEWHSSLSTSMREKIWRQVARGAISVIVGVRSALF---LPFKKLGLIVIDEEHDISYKQEEGILYNARDMSIVR  345 (731)
Q Consensus       271 --~~~v~v~HS~ls~~eR~~~w~~i~~G~~~IVIGtRSAif---~P~~nLglIIvDEEHd~sykq~~~pry~aRdvA~~R  345 (731)
T Consensus       675 ~~pv~i~~LsRf~s~ke~~~i~~~l~~G~idIvIGTH-~ll~~dv~f~~LGLlIiDEEq----------rFGV~~KE~lk  743 (1148)
T PRK10689        675 NWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTH-KLLQSDVKWKDLGLLIVDEEH----------RFGVRHKERIK  743 (1148)
T ss_pred             CCCCEEEEECCCCCHHHHHHHHHHHHCCCCCEEEHHH-HHHCCCCCCCCCCEEEECCCH----------HCCHHHHHHHH
T ss_conf             1573377503888899999999998669987762048-886698654666437860102----------13799999997


Q ss_pred             HHHCCCCEECCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEE
Q ss_conf             51103210000245432467753212344412432236765433211022223322245479899999988622655179
Q gi|254780619|r  346 GKIESFPVVLVSATPSIESRVNGISRRYHSVHLSTRYRNSALPHLQVIDMRGQTIAQGKSLSPEMIDGIRHTLARNEQTL  425 (731)
Q Consensus       346 a~~~~~~lilgSATPSles~~~~~~g~~~~~~l~~R~~~~~~P~i~ivDm~~~~~~~~~~lS~~l~~~i~~~l~~g~qvl  425 (731)
T Consensus       744 ~l~~~vdvLtltATPIPRTL~msl~G~rdlS~i~tpP~~R-~~v~T~v------~---~~~~~~i~eai~re~~rggq~~  813 (1148)
T PRK10689        744 AMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARR-LAVKTFV------R---EYDSLVVREAILREILRGGQVY  813 (1148)
T ss_pred             HCCCCCCEEEEECCCCHHHHHHHHCCCCCEEEECCCCCCC-CCCEEEE------E---CCCHHHHHHHHHHHHHHCCEEE
T ss_conf             2289987897625564469999880773302213699989-8708998------3---5872999999999998188089


Q ss_pred             EEECCCCEEHHCCCCCCCCCCCCCCCCCEEEEECCCCCCEECHHHCCCCCCCCCCCCCCCCEECCCCCCHHHHHHHHHHC
Q ss_conf             97422200000023565434310146520121135783200002102446555666787411001354289988885204
Q gi|254780619|r  426 LFLNRRGYAPLTLCQVCGNRLKCLHCSCWLVEHRSKKKLYCHQCGHSAIYSQSCVVCGSSGKMIACGFGIERIAEEVCEY  505 (731)
Q Consensus       426 l~lnRrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~~l~~~G~Gte~~~e~l~~~  505 (731)
T Consensus       814 ~~~~~~~-------------------------------------------------------------~i~~~~~~~~~~  832 (1148)
T PRK10689        814 YLYNDVE-------------------------------------------------------------NIQKAAERLAEL  832 (1148)
T ss_pred             EEECCHH-------------------------------------------------------------HHHHHHHHHHHH
T ss_conf             9953254-------------------------------------------------------------199999999974


Q ss_pred             CCCCHHHHCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             85200010232113586789999986212576579870443023113452012330003443102455789999987543
Q gi|254780619|r  506 FPLARISILSSDLEGGGGRLQLQLSAIAKGEIDIIIGTQLVAKGHNFPRMSLVGVVDGDLGLTNADLRSSERTFQLLSQV  585 (731)
Q Consensus       506 fp~~~v~~~d~d~~~~~~~~~~~~~~~~~~~~~ilvgTq~i~kg~~fp~v~lv~il~aD~~l~~pd~ra~E~~~qll~qv  585 (731)
T Consensus       833 ~p~~~~~~~hg~m--~~~~~e~~m~~f~~~~~~~l~~ttiie~g~dip~ant~ii~~a~~~gl-----------~ql~ql  899 (1148)
T PRK10689        833 VPEARIAIGHGQM--RERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGL-----------AQLHQL  899 (1148)
T ss_pred             CCCCCEEEEECCC--CHHHHHHHHHHHHCCCCCEEEECCEEECCCCCCCCCEEEEECHHHCCH-----------HHHHHH
T ss_conf             8777189998999--989999999999759988999897876586677884799975321455-----------777754


Q ss_pred             HHCCCCCCCCCEEEEEE
Q ss_conf             11025667886899993
Q gi|254780619|r  586 TGRAGRFGLKSLGLIQA  602 (731)
Q Consensus       586 ~gRagr~~~~g~v~iQt  602 (731)
T Consensus       900 rgrvgr~~~~ayaYll~  916 (1148)
T PRK10689        900 RGRVGRSHHQAYAWLLT  916 (1148)
T ss_pred             CCCCCCCCCEEEEEEEE
T ss_conf             36557788707999986