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