HHsearch alignment for GI: 254780893 and conserved domain: COG3707
>COG3707 AmiR Response regulator with putative antiterminator output domain [Signal transduction mechanisms].
Probab=99.30 E-value=9e-13 Score=97.29 Aligned_cols=116 Identities=20% Similarity=0.335 Sum_probs=99.5
Q ss_pred CEEEEECCCHHHHHHHHHHHHHCCCEEE-EECCHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCEECCC
Q ss_conf 9599986998999999999998898999-999989999999857994788311498743343111222232233100133
Q gi|254780893|r 1 MRILLIEDDKALAHSIELMLKSENFNVY-VTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILS 79 (236)
Q Consensus 1 mkILivedd~~~~~~l~~~L~~~g~~v~-~a~~~~eal~~~~~~~~DlvIlD~~lp~~~G~~~~~~ir~~~~~~pII~ls 79 (236)
T Consensus 6 lrvlv~~d~~i~~~~i~~~l~eag~~~Vg~~~~~~~~~~~~~~~~pDvVildie~p~rd-~~e~~~~~~~~~~~piv~lt 84 (194)
T COG3707 6 LRVLVADDEALTRMDIREGLLEAGYQRVGEAADGLEAVEVCERLQPDVVILDIEMPRRD-IIEALLLASENVARPIVALT 84 (194)
T ss_pred CCEEECCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCHHHHHCCCCEEEEECCCCCCC-HHHHHHHHHCCCCCCEEEEE
T ss_conf 53034241135556789899875973876541344750677852998799966787732-89998986058998789997
Q ss_pred CCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 32100000112322101112233222111112222222
Q gi|254780893|r 80 GMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVR 117 (236)
Q Consensus 80 ~~~~~~~~~~al~~GAddyi~KP~~~~eL~ari~~llr 117 (236)
T Consensus 85 ~~s~p~~i~~a~~~Gv~ayivkpi~~~rl~p~L~vA~s 122 (194)
T COG3707 85 AYSDPALIEAAIEAGVMAYIVKPLDESRLLPILDVAVS 122 (194)
T ss_pred CCCCHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHHHH
T ss_conf 16785899999973874988347654210479999999