HHsearch alignment for GI: 254780882 and conserved domain: cd01188
>cd01188 INT_pAE1 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus H1.
Probab=100.00 E-value=8.5e-44 Score=292.87 Aligned_cols=177 Identities=30% Similarity=0.382 Sum_probs=155.9
Q ss_pred CCCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEC-CCCCCCCCCCCC
Q ss_conf 1111111015678776531013567757753201222100112332222211222223323220332-378531000112
Q gi|254780882|r 125 LPRALNEKQALTLVDNVLLHTSHETKWIDARNSAILYLLYGCGLRISEALSLTPQNIMDDQSTLRIQ-GKGDKIRIVPLL 203 (328)
Q Consensus 125 ~p~~lt~~e~~~ll~~~~~~~~~~~~~~~~Rd~~i~~ll~~TGlR~~El~~L~~~did~~~~~i~v~-gKg~K~R~Vpi~ 203 (328)
T Consensus 1 lpr~Ls~eEi~~Ll~a~~~-----~~~~~~Rd~ali~ll~~tGlR~~El~~L~~~Did~~~~~i~i~~~K~~k~r~vpl~ 75 (188)
T cd01188 1 LPRALPWEDVERLLASCDR-----STPVGRRDYAILLLLARLGLRAGEVAALRLDDIDWRTGTIRVRQGKGGRVTRLPLP 75 (188)
T ss_pred CCCCCCHHHHHHHHHCCCC-----CCCHHHHHHHHHHHHHHHCHHHHHHHHCCCCCCCCCCCCEEEECCCCCCCCCCCCH
T ss_conf 9699999999999957576-----88451799999999999881599998569835565689778863899853344684
Q ss_pred CCCHHHHHHHHHHHCCCCCCCCCCCCCCCCC---CCCCCCCCHHHHHHHHHHHCCCC-CCCCCCCCHHHHHHHHHHCCCC
Q ss_conf 2100234322111001234466554321111---22111000123567899976869-9988054179999999984899
Q gi|254780882|r 204 PSVRKAILEYYDLCPFDLNLNIQLPLFRGIR---GKPLNPGVFQRYIRQLRRYLGLP-LSTTAHTLRHSFATHLLSNGGD 279 (328)
Q Consensus 204 ~~~~~~l~~yl~~~~~~~~~~~~~~lF~~~~---g~~ls~~~i~~~~~~~~~~~gi~-~~~spH~lRHtfAt~ll~~G~~ 279 (328)
T Consensus 76 ~~~~~~l~~~l~~~~~~---~~~~~lf~~~~~~~~~~~~~~~i~~~~~~~~~~ag~~~~~~~~H~lRHt~at~l~~~G~~ 152 (188)
T cd01188 76 AEVGAALADYLRDGRPA---TDSRRVFLRMRAPFRPFAGHSAVSNIVRRALRRAGISPRRGGAHLLRHSLATRLLRAGAP 152 (188)
T ss_pred HHHHHHHHHHHHHHCCC---CCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCC
T ss_conf 99999999999980767---887644350588888876699999999999998499889878761489999999996999
Q ss_pred HHHHHHHHCCCCHHHHHHHHHHCHHHHHHH
Q ss_conf 889999837888789799996198999999
Q gi|254780882|r 280 LRSIQSILGHFRLSTTQIYTNVNSKNGGDW 309 (328)
Q Consensus 280 ~~~v~~~lGH~s~~tT~~Y~h~~~~~~~~~ 309 (328)
T Consensus 153 l~~vq~~lGH~si~tT~~Y~h~~~e~lr~~ 182 (188)
T cd01188 153 LKEIGDVLGHRSPDSTAIYAKVDVDALRAI 182 (188)
T ss_pred HHHHHHHHCCCCHHHHHHHHCCCHHHHHHH
T ss_conf 999999838998899999885699999866