HHsearch alignment for GI: 255764498 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=1.5e-44 Score=278.41 Aligned_cols=181 Identities=24% Similarity=0.362 Sum_probs=156.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHCCCCCCCCCCCHHHHHHHHHCCCC-CCCCCCCCCCH
Q ss_conf 12233202469999864320012561027765431100012210013433343200000111100011-12221111100
Q gi|255764498|r 96 LPKTLHKDTIANLLEQAKIEAENPAPGQWKRVRIFLLIELLYATGMRVSELVTLSAHTLNLTERTMII-QGKGNKERLVI 174 (300)
Q Consensus 96 ~~~~ls~~e~~~ll~~~~~~~~~~~~~~~~~~R~~~il~ll~~tGlR~~Ei~~L~~~di~~~~~~i~v-~~K~~k~R~ip 174 (300)
T Consensus 1 lpr~Ls~eEi~~Ll~a~~~-------~~~~~~Rd~ali~ll~~tGlR~~El~~L~~~Did~~~~~i~i~~~K~~k~r~vp 73 (188)
T cd01188 1 LPRALPWEDVERLLASCDR-------STPVGRRDYAILLLLARLGLRAGEVAALRLDDIDWRTGTIRVRQGKGGRVTRLP 73 (188)
T ss_pred CCCCCCHHHHHHHHHCCCC-------CCCHHHHHHHHHHHHHHHCHHHHHHHHCCCCCCCCCCCCEEEECCCCCCCCCCC
T ss_conf 9699999999999957576-------884517999999999998815999985698355656897788638998533446
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCC
Q ss_conf 0012478875323210012467775200123--33222221111111012344201466764259885889999999858
Q gi|255764498|r 175 LSPSALHALQMYKKTCSSMKMTGNDLWLFPS--STKTGHLSRQVFARDLKALAARAGIQKKNISPHIIRHAFASHLLEGG 252 (300)
Q Consensus 175 i~~~~~~~l~~y~~~~~~~~~~~~~~~lf~~--~~~~~~~s~~~~~~~~~~~~~~~gi~~~~~t~H~lRht~at~l~~~G 252 (300)
T Consensus 74 l~~~~~~~l~~~l~~~~~~---~~~~~lf~~~~~~~~~~~~~~~i~~~~~~~~~~ag~~~~~~~~H~lRHt~at~l~~~G 150 (188)
T cd01188 74 LPAEVGAALADYLRDGRPA---TDSRRVFLRMRAPFRPFAGHSAVSNIVRRALRRAGISPRRGGAHLLRHSLATRLLRAG 150 (188)
T ss_pred CHHHHHHHHHHHHHHHCCC---CCCCCEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf 8499999999999980767---8876443505888888766999999999999984998898787614899999999969
Q ss_pred CCHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHH
Q ss_conf 8888999985589989989996459999999999
Q gi|255764498|r 253 ADLRTIQILLGHTDISTTQIYTHLLPDKLQKLVQ 286 (300)
Q Consensus 253 ~~~~~v~~~lGH~s~~tT~~Y~~~~~~~~~~~~~ 286 (300)
T Consensus 151 ~~l~~vq~~lGH~si~tT~~Y~h~~~e~lr~~~~ 184 (188)
T cd01188 151 APLKEIGDVLGHRSPDSTAIYAKVDVDALRAIAL 184 (188)
T ss_pred CCHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHCC
T ss_conf 9999999983899889999988569999986647