HHsearch alignment for GI: 254780476 and conserved domain: COG3707
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms].
Probab=99.61 E-value=1.1e-14 Score=105.22 Aligned_cols=116 Identities=28% Similarity=0.456 Sum_probs=100.2
Q ss_pred CCCEEEEECCCHHHHHHHHHHHHHCCCEEE-EECCHHHHHHHHHHCCCCEEEEEEECCCCCHHHHHHHHHHCCCCCCCCE
Q ss_conf 987789953998999999999997898999-9889799999998279989999504129695999999982857689959
Q gi|254780476|r 1 MLKKVMIVEDNELNMKLFRDLIETSGYIAL-QTRNGMEALELARQHKPDVIIMDIQLQEISGLEITKQIKEDSELQEIPV 79 (123)
Q Consensus 1 m~kkiLiVDD~~~~~~~l~~~l~~~g~~v~-~a~~g~eal~~l~~~~~dlillD~~mp~~dG~el~~~ir~~~~~~~ipi 79 (123)
T Consensus 4 ~~lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~~~~~pDvVildie~p~rd--~~e~-~~~~~~~~~~pi 80 (194)
T COG3707 4 MLLRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVCERLQPDVVILDIEMPRRD--IIEA-LLLASENVARPI 80 (194)
T ss_pred CCCCEEECCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHCCCCEEEEECCCCCCC--HHHH-HHHHHCCCCCCE
T ss_conf 6653034241135556789899875973876541344750677852998799966787732--8999-898605899878
Q ss_pred EEEEECCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHH
Q ss_conf 9999249989999999769988998798989999999997
Q gi|254780476|r 80 IAVTAFAMKGDEERIRKGGCEAYISKPISLSIFMETIKKY 119 (123)
Q Consensus 80 i~~t~~~~~~~~~~~~~~g~~~~l~KPi~~~~L~~~i~~~ 119 (123)
T Consensus 81 v~lt~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~vA 120 (194)
T COG3707 81 VALTAYSDPALIEAAIEAGVMAYIVKPLDESRLLPILDVA 120 (194)
T ss_pred EEEECCCCHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHH
T ss_conf 9997167858999999738749883476542104799999