HHsearch alignment for GI: 254780134 and conserved domain: cd01185
>cd01185 INT_Tn4399 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the Bacteroides mobilizable transposon, Tn4399, integrase.
Probab=100.00 E-value=1.1e-42 Score=295.97 Aligned_cols=266 Identities=18% Similarity=0.195 Sum_probs=215.3
Q ss_pred CCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHHHH------CCCCHHHCCHHHHHHHHHHH----CCCHHHHH
Q ss_conf 44878999999998355--43569788999999999999995------69995896999999988751----59978999
Q gi|254780134|r 67 KPTTLKWLISEYRKSAH--WGSLAVNSRISFESYFDQIIRKS------GDFDYRKITTKHIRSGVESR----KHTPSSAI 134 (348)
Q Consensus 67 ~~~Tl~~l~~~y~~~~~--~~~l~~~T~~~~~~~~~~~~~~~------g~~~l~~it~~~i~~~~~~~----~~~~~t~n 134 (348)
T Consensus 11 ~~~tf~~~~~~~~e~~~~~~k~~S~~Ti~~Y~~~l~~f~~Fl~~~~~~~di~~~~i~~~~i~~f~~~L~~~k~~s~~Ti~ 90 (299)
T cd01185 11 MQQTFLAYFDKHNDERERVGKDKAQSTWKRYRTHLKNLREFIECTYKEIDIALLELTREFILEFKLFLRKEKKLSRNTAV 90 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHCCHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf 89999999999999999867756799999999999999999998288777887884799999999999875798888999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHCC---CCHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 999999999964455200105665103464324444211652344566664037---80899998989861887310025
Q gi|254780134|r 135 QFLTSMRVLFKWAVRQEYVAINPCLSVERPKRKTEGIRPWTKEDMQQFKSFWSE---GSQPRLAFEFLLYSGLRCSDSCR 211 (348)
Q Consensus 135 ~~~~~l~~~~~~a~~~~~i~~NP~~~v~~~~~~~~~~~~~t~~ei~~~~~~~~~---~~~~~~~~~l~~~TG~R~~Ei~~ 211 (348)
T Consensus 91 ~~l~~lr~~~~~a~~~~~i~~nP~~~i~~~k~~~~~~~~Lt~eEi~~ll~~~~~~~~~~~~r~~~l~~~~TGlR~~El~~ 170 (299)
T cd01185 91 HYLSWLKKLLKIAYRDKGLRDNPFAKFKCKKEEETDREYLTPDELQKLAETPCKDPRLELVRRAFLFSCFTGLRYSDIKK 170 (299)
T ss_pred HHHHHHHHHHHHHHHCCCCCCCCHHHCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf 99999999999999889921192965617888998999999999999982714787469999999999880988999983
Q ss_pred CCCCEEEEE-----CCCCCCCCCHHHHHHCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC--C
Q ss_conf 664014430-----233211331024331121689999964201332211222457758778999999999983889--9
Q gi|254780134|r 212 AGVQHLQNN-----IFSIKTQKTGTIITVELPDGFMKLLAMTPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVN--K 284 (348)
Q Consensus 212 L~~~did~~-----~i~~~~~Kt~~~~~vpl~~~l~~~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~--~ 284 (348)
T Consensus 171 L~~~dI~~~~~~~~~i~~~~~Kt~~~~~ipl~~~~~~~l~~~~~~~~~~lF~----~~~~~~~~~~lk~~~~~agi~~~i 246 (299)
T cd01185 171 LTWEEIVEDSDGEKWIRKRRQKTKVEVYIPLLDEALQILGKYPDEKEGLVFP----LLKNSNMNKPLKEWAKLAGIKKHI 246 (299)
T ss_pred CCHHHHHHCCCCEEEEEECCCCCCEEEEEECHHHHHHHHHHHHCCCCCCCCC----CCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf 9699821336964899851674422432001599999999852267544068----887568999999999982889999
Q ss_pred CCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 814026999999998489988999996499989999999999899999999999
Q gi|254780134|r 285 SAHGVRKFSATISADAGATAHELMATYGWKTVDQAETYTKGADRIRLGIKNSRR 338 (348)
Q Consensus 285 ~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~~~r~a~~a~~~ 338 (348)
T Consensus 247 t~H~lRHTfAt~ll~~G~~l~~vq~~LGHssi~tT~~Y~hv~~e~~--~e~~~k 298 (299)
T cd01185 247 TFHCARHTFATLQLLSGGPIETVSKMLGHTNIKTTQVYARVTDEKK--SEDMNK 298 (299)
T ss_pred CCHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHCCCHHHH--HHHHHC
T ss_conf 8114099999999987989999998818998899999987798899--999963