HHsearch alignment for GI: 254780934 and conserved domain: COG5151

>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair].
Probab=96.83  E-value=0.032  Score=31.79  Aligned_cols=175  Identities=11%  Similarity=0.115  Sum_probs=106.8

Q ss_pred             CCEEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEECC-CCEEEEECCCCHHHHHHHHH
Q ss_conf             87249999657864511313531379999998876322100236656734899998268-50561020478689999986
Q gi|254780934|r  170 ARLDMMIVLDVSRSMESFFDSSITKIDMAIKSINAMLEEVKLIPDVNNVVQSGLVTFSN-KIEEFFLLEWGVSHLQRKIK  248 (374)
Q Consensus       170 ~~~di~~VlD~SgSM~~~~~~~~~ki~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~t~~~~~~~~~i~  248 (374)
T Consensus        86 IiRhl~l~lD~Seam~e~Df~-p~r~a~vikya~~Fv~eFf~qNPiS---qlsii~irdg~a~~~s~~~gnpq~hi~~lk  161 (421)
T COG5151          86 IIRHLHLILDVSEAMDESDFL-PTRRANVIKYAEGFVPEFFSQNPIS---QLSIISIRDGCAKYTSSMDGNPQAHIGQLK  161 (421)
T ss_pred             HHHEEEEEEEHHHHHHHHHCC-CHHHHHHHHHHHHHHHHHHCCCCCH---HEEEEEHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             021057888735444332036-0588889999987768875259700---324433354688876534799899998750


Q ss_pred             HCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             01336877444203676776432223333102578865642799980687788888068999999999789879999924
Q gi|254780934|r  249 YLSKFGVSTNSTPGLKYAYNQIFDMQGMRQHCNTEDANYKKIIVFMTDGENLSTKEDQQSLYYCNEAKKRGAIVYAIGIR  328 (374)
Q Consensus       249 ~l~~~g~~T~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~k~iillTDG~~~~~~~~~~~~~~~~~~k~~gi~IytIg~~  328 (374)
T Consensus       162 S~rd~~gnfSLqNaLEmar~~l~~~---------~~H~trEvLiifgS~s---t~DPgdi~~tid~Lv~~~IrV~~igL~  229 (421)
T COG5151         162 SKRDCSGNFSLQNALEMARIELMKN---------TMHGTREVLIIFGSTS---TRDPGDIAETIDKLVAYNIRVHFIGLC  229 (421)
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHCCC---------CCCCCEEEEEEEEECC---CCCCCCHHHHHHHHHHHCEEEEEEEEH
T ss_conf             1004688853776887766540345---------4556227999984215---589741899999987505279997501


Q ss_pred             CCCCHHHHHH-H-CC----CCCEEEECCHHHHHHHHHHHH
Q ss_conf             8222788998-2-38----981798389899999999999
Q gi|254780934|r  329 VIRSHEFLRA-C-AS----PNSFYLVENPHSMYDAFSHIG  362 (374)
Q Consensus       329 ~~~~~~~L~~-~-As----~~~~~~a~~~~~L~~~f~~I~  362 (374)
T Consensus       230 aev--aicKeickaTn~~~e~~y~v~vde~Hl~el~~E~~  267 (421)
T COG5151         230 AEV--AICKEICKATNSSTEGRYYVPVDEGHLSELMRELS  267 (421)
T ss_pred             HHH--HHHHHHHHHCCCCCCCEEEEEECHHHHHHHHHHCC
T ss_conf             589--99999986147676750676604788999998627