HHsearch alignment for GI: 254780601 and conserved domain: COG4581
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair].
Probab=99.88 E-value=2.2e-20 Score=156.24 Aligned_cols=316 Identities=25% Similarity=0.304 Sum_probs=209.5
Q ss_pred HHHHHHCCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCHHH--HHHHHHHHHHHCCCCCCCCCCCCEEEEECCCHHHHHH
Q ss_conf 99999787987898999999999759969999289874689--9999999986104212255688279998499899999
Q gi|254780601|r 12 GEALSERGYVNLTSVQEAILNPDLREKDVLVSAQTGSGKTV--AFGLALASTLLAENDRFSPASAPLALAIAPTRELAVQ 89 (573)
Q Consensus 12 ~~~l~~~g~~~pt~iQ~~~ip~~l~g~d~i~~a~TGsGKT~--af~lp~l~~l~~~~~~~~~~~~~~~lil~PTrELa~Q 89 (573)
T Consensus 110 ~~~~~~~~F~-LD~fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~a--l~---------~~qrviYTsPIKALsNQ 177 (1041)
T COG4581 110 APPAREYPFE-LDPFQQEAIAILERGESVLVCAPTSSGKTVVAEYAIALA--LR---------DGQRVIYTSPIKALSNQ 177 (1041)
T ss_pred CCHHHHCCCC-CCHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHH--HH---------CCCCEEECCCHHHHHHH
T ss_conf 8378748989-678999999998479957997337898555999999999--87---------18944861630664206
Q ss_pred HHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHCCCCEEEEECCCCHHHHHHCCCCCCCCCEEEEEECCCCCCCCHHHHHH
Q ss_conf 99999998544698799998899879999961289759982231013321000122464318999613110010012357
Q gi|254780601|r 90 VGRELEWLYAKTGVVVAVCIGGVSVHRERRDLQNGAHIVVGTPGRLCDHIRGKGLNISHLKAVVLDEADEMLDLGFRDDI 169 (573)
Q Consensus 90 v~~~~~~l~~~~~~~v~~~~gg~~~~~q~~~l~~~~~iiv~TPgrl~d~~~~~~l~l~~v~~lVlDEaD~ml~~gf~~~i 169 (573)
T Consensus 178 Kyrdl~~~fgdv~~~vGL~TGDv~-------IN~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~-eRG~V 249 (1041)
T COG4581 178 KYRDLLAKFGDVADMVGLMTGDVS-------INPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDR-ERGVV 249 (1041)
T ss_pred HHHHHHHHHHHHHHHCCCEECCEE-------ECCCCCEEEEEHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCC-CCCHH
T ss_conf 799999986005654040105434-------2799966886099999986258610135306888766650463-22125
Q ss_pred -HHHHHHCCCCCCEEEEECCCCCCCHHHHHHH---CCCCCCCCCCCCCCCCCCCCHHCCC------CCCCH---------
Q ss_conf -8887521433422563111122200111121---0123333233323256652000000------00000---------
Q gi|254780601|r 170 -EFILDSSPKKRRMLMFSATISPAITTLAKNY---QKDAVRVNIASENRQHSDIDYRAVL------VALSD--------- 230 (573)
Q Consensus 170 -~~i~~~~p~~~q~~l~SAT~~~~i~~l~~~~---~~~p~~i~~~~~~~~~~~i~~~~~~------v~~~~--------- 230 (573)
T Consensus 250 WEE~Ii~lP~~v~~v~LSATv~N~-~EF~~Wi~~~~~~~~~vv-~t~~RpvPL~~~~~~~~~l~~lvde~~~~~~~~~~~ 327 (1041)
T COG4581 250 WEEVIILLPDHVRFVFLSATVPNA-EEFAEWIQRVHSQPIHVV-STEHRPVPLEHFVYVGKGLFDLVDEKKKFNAENFPS 327 (1041)
T ss_pred HHHHHHHCCCCCCEEEEECCCCCH-HHHHHHHHHCCCCCEEEE-EECCCCCCEEEEEECCCCEEEEECCCCCCHHHCCHH
T ss_conf 789998667777689996788987-999999974037874899-506888971798865875145354565301113433
Q ss_pred --------------------------------------HHHHHHHCCCCCCCCEEEEECCCHHHHHHHHHHHHHC-----
Q ss_conf --------------------------------------2455420010235641677513023345655555422-----
Q gi|254780601|r 231 --------------------------------------RDNAIVNILRYHGAKNAIVFCSTRASVSRFTKVLAEH----- 267 (573)
Q Consensus 231 --------------------------------------k~~~l~~ll~~~~~~~~ivF~~t~~~~~~l~~~L~~~----- 267 (573)
T Consensus 328 a~~~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~~~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~~ 407 (1041)
T COG4581 328 ANRSLSCFSEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRGCEEAAQILSTLDLVLT 407 (1041)
T ss_pred HHHHHHCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHCCCCCCCC
T ss_conf 43343022000135676543212333345677665655305777665440378528999736518999987503642158
Q ss_pred -----------------------CCC-------------CCCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCC
Q ss_conf -----------------------666-------------30104899999999998665448814998538650014578
Q gi|254780601|r 268 -----------------------LFQ-------------VVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLP 311 (573)
Q Consensus 268 -----------------------g~~-------------~~~lhg~~~q~~R~~~~~~fr~g~~~vLV~TDvaaRGiDi~ 311 (573)
T Consensus 408 ~~~e~~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNmP 487 (1041)
T COG4581 408 EEKERAIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINMP 487 (1041)
T ss_pred CCHHHHHHHHHHHHHHHCCHHHHCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCEEEEEEHHHHHHHCCCC
T ss_conf 82788899999999853472021275009999998760345402450368999999998604305775333464015784
Q ss_pred CCCEEE----EEC----CCCCHHHHHHHHCCCCCCCC--CCEEEEEEC
Q ss_conf 873389----705----88747899986030103788--860256405
Q gi|254780601|r 312 DLELVI----HAE----LSSNPENLLHRSGRTGRAGR--KGMSVFVIP 349 (573)
Q Consensus 312 ~v~~Vi----n~d----~P~~~~~yvHR~GRtgRag~--~G~ai~l~~ 349 (573)
T Consensus 488 artvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~ 535 (1041)
T COG4581 488 ARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEP 535 (1041)
T ss_pred CCCEEEEEEEEECCCCEEECCHHHHHHHHHHHCCCCCCCCCEEEEECC
T ss_conf 001354655775488535658157777544430155654654999557