HHsearch alignment for GI: 254781115 and conserved domain: COG0617
>COG0617 PcnB tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis].
Probab=100.00 E-value=0 Score=533.58 Aligned_cols=385 Identities=28% Similarity=0.373 Sum_probs=281.6
Q ss_pred HHCCCHHHHHHHHHHHHCCCEEEEEHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHHCCCCEECCCCCCCEEEEEECCE
Q ss_conf 22199889999999997898599970699888778898608999808989999999876995621343144699998998
Q gi|254781115|r 8 KWFHDSDLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKK 87 (416)
Q Consensus 8 ~~~~~~~~~~i~~~l~~~g~~~~~VGG~VRD~ll~~~~~DiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~gt~~~~~~~~ 87 (416)
T Consensus 4 ~~~~~~~~~~v~~~l~~~g~eaylVGGaVRD~LLG~~~~D~Diat~~~p~~~~~~~~----~~~~~G~~f~t~~v~~~~~ 79 (412)
T COG0617 4 LKDLSPNALKVLSKLKEAGYEAYLVGGAVRDLLLGRPPKDVDIATNATPEEVKKLFR----NTRPVGRKFGTVTVPFNGE 79 (412)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHCCCCCCCEEEEECCCHHHHHHHHH----HHHHCCCCCCEEEECCCCE
T ss_conf 133327899999999966985999732087877699966753771288799999987----4010166766589754985
Q ss_pred EEEEECCCCCCC-CCCCCCCCCCCHHHHHHCCCCCCCCCCEEECC-CCHHHHHCCCHHHHHHHHHHHCCCCCCHHHCCCC
Q ss_conf 886421344667-68874322332013321044780030020003-2101320000688878777642764310010421
Q gi|254781115|r 88 YFDITTLRSDLI-TDGRYAKVVFTRDWKADSLRRDFTINALYADQ-QGKVIDYVGGLNDLRNRTIKFIGDAHHRILEDYL 165 (416)
Q Consensus 88 ~~di~~~R~e~~-~~~~~~~~~~~~~~~eDl~RRDFTINAla~~~-~~~l~Dp~gG~~DL~~~~ir~v~~~~~rf~EDpL 165 (416)
T Consensus 80 ~~ev~T~R~~~~~~~~~~~~~~~~~tleeDl~RRDFTINAla~~~~~~~iiD~~gG~~DL~~~~lR~i~~~~~rf~EDpl 159 (412)
T COG0617 80 IIEVTTFRKEGYGYNGRPLPVVFPGTLEEDLKRRDFTINALAYDPEDGEIIDPFGGLKDLENRVLRHIGDASERFREDPL 159 (412)
T ss_pred EEEEEEEECCCCCCCCCCCCCCCCCCHHHCCCCCCCCHHHHCCCCCCCEECCCCCCHHHHCCCEEECCCCCHHCCCCCHH
T ss_conf 89998730357776788778788999587565658609871468656905079899768717857534682420452648
Q ss_pred CEEEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCHHH
Q ss_conf 00332012201364331111000123333210222057768878864211018999998753002334688701058578
Q gi|254781115|r 166 RILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIFLDVQEISLDQ 245 (416)
Q Consensus 166 RiLRa~RFasrlg~f~id~~t~~ai~~~~~~L~~iS~ERI~~El~KiL~~~~~~~~l~~L~~~gll~~ifpel~~~~~~~ 245 (416)
T Consensus 160 RiLRa~RFaa~l~-f~i~~~t~~~i~~~~~~~~~is~ERi~~El~KlL~~~~~~~~l~~l~~~g~l~~l~p~~~~~~~~~ 238 (412)
T COG0617 160 RILRAARFAARLG-FTIEPETEEAIRLMAPLLAKISRERLWDELKKLLLSPNPREALQLLREYGALKILFPELDKLFGVP 238 (412)
T ss_pred HHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCCCHHHCCCCHHHHHCCH
T ss_conf 9999999999837-889856999999998764408888999999999779989999999998698654296044433000
Q ss_pred --HHHHHHHHHHCCCCCCHHHHHHHHCCCCCHHHHHHHHH-------------HCCCHHHHHHHHHHHHHHHCCCCCCCH
Q ss_conf --98778677631788016766652047768578998875-------------303425677778888754114333672
Q gi|254781115|r 246 --LSQVIEAEQVFEWKIDSLLRFIVLISWQDKKSILSMAK-------------KFSLPREIRYFLISFFNCNFNQKTLSI 310 (416)
Q Consensus 246 --l~~~~~~~~~~~~~~~~~lrla~Ll~~~~~~~~~~~~~-------------rlkl~~~~~~~l~~~~~~~~~~~~~~~ 310 (416)
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 316 (412)
T COG0617 239 KLLLALREIELLLHNTDELLLALAALLPAFL-LAAATLPLLLRKGKTIAKKRRELKHDEAAAKAVNDLLKRLLRPNYLG- 316 (412)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHCHHHH-HHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH-
T ss_conf 2567789999851341159999987473467-78876315677676578877531415667777999999874113556-
Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHH-CCCCCCHHHHHHHHHHH
Q ss_conf 46678998708024551698999864077760138999999987751288888988789996-58987779999999999
Q gi|254781115|r 311 PEIKKLFYLYGDKVMIAKLKIFLALHYNNLTHQDTCFILQVLSDIIHWKKPLFPLTGDDVVK-YGIPPGKKVGNILVHCK 389 (416)
Q Consensus 311 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~p~~pI~G~dL~~-~Gi~pGp~iG~iL~~l~ 389 (416)
T Consensus 317 -~~~~---------~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 385 (412)
T COG0617 317 -YLKR---------LVEEVREIWHEAGELLPR-TGKRARKLLRLLAFRAALELLILGRDLGEAAGYKPGPKLGEILQLLE 385 (412)
T ss_pred -HHHH---------HHHHHHHHHHHHHHHHHC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf -6789---------999999999999875101-02334558777999976666651242033217765338999999875
Q ss_pred HHHHCCCCCCCHHHHHHHHHH
Q ss_conf 999638888898999999999
Q gi|254781115|r 390 QEWINSSFQLSQEDLHHLLRK 410 (416)
Q Consensus 390 ~~~i~~~~~n~~e~l~~~lk~ 410 (416)
T Consensus 386 ~~~~~~~~~~~~~~~~~~~~~ 406 (412)
T COG0617 386 EKPLKGVIKNLKEALIERLER 406 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHCC
T ss_conf 200122223046777887502