HHsearch alignment for GI: 254780606 and conserved domain: TIGR01631
>TIGR01631 Trypano_RHS trypanosome RHS family; InterPro: IPR006518 These sequences are full-length and part-length members of the RHS (retrotransposon hot spot) family in Trypanosoma brucei and Trypanosoma cruzi. Members of this family are frequently interrupted by non-LTR retrotransposons inserted at exactly the same relative position. .
Probab=92.02 E-value=0.72 Score=24.94 Aligned_cols=76 Identities=16% Similarity=0.111 Sum_probs=58.8
Q ss_pred HCCCEEEEECCCCCHHHHHHHHHHHHHHHCCHHHEEEEEECCCCCEECCCCCCCCEEEEEE--ECHHHHHHHHHHHHH
Q ss_conf 1484699707875344799999999998568011079997234210001257752000044--441787689999998
Q gi|254780606|r 411 NMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVV--TNPKKAVMALKWAVR 486 (744)
Q Consensus 411 ~~PH~lvaG~TgsGKS~~l~~~i~sl~~~~~p~~~~~~liD~k~~~~~~~~~~ph~~~~v~--~~~~~~~~~l~~~~~ 486 (744)
T Consensus 306 ~~~~~vliGTPGIGKS~~vGSfLLy~LLHyd~e~L~~vAYF~~g~AY~F~k~~~G~~G~V~~Y~~~~~a~~~v~~l~~ 383 (814)
T TIGR01631 306 IPERRVLIGTPGIGKSFGVGSFLLYKLLHYDAEKLQVVAYFVKGRAYIFEKSSGGREGRVKFYEKEKAALDVVEALVS 383 (814)
T ss_pred CCCCEEEEECCCCCHHHHHHHHHHHHHHHCHHCCCCEEEEEECCEEEEEECCCCCCCEEEEEECCCCHHHHHHHHHHC
T ss_conf 787728881788525566899997554211000375589997467999971788963057762444036777553550