HHsearch alignment for GI: 254780722 and conserved domain: COG1955
>COG1955 FlaJ Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion].
Probab=99.19 E-value=2.4e-08 Score=70.51 Aligned_cols=119 Identities=18% Similarity=0.242 Sum_probs=100.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHH-CCCHHHHHHHHHHHHH-HCCCCHHHHHHHHHHHCCCHHHH
Q ss_conf 999999999999999999999995699989999999992-4842899999999986-30388889999977534873479
Q gi|254780722|r 5 IKKRTAKFLDDFPNALDIIVRSVRAGLPVSDAVAVIVGQ-SSDPVRSEFRRVIETQ-HLGLSLSESISRMVRYMPLQEVS 82 (187)
Q Consensus 5 ~~~R~~~~~~~l~~~l~~l~~~l~aG~sl~~Al~~~a~~-~~~~l~~e~~~i~~~~-~~G~~~~~al~~~~~~~~~~~~~ 82 (187)
T Consensus 43 ~d~k~~~in~~l~f~lt~m~~LsTs~i~r~~If~~ls~~~eyg~~~~~f~kI~~L~~~Wgy~~a~Ac~~iA~k~~~~~l~ 122 (527)
T COG1955 43 RDSKKNRINSDLLFFLTYMASLSTSDIPRDDIFRILSRKEEYGPLRKEFRKIYNLVDKWGYSLAEACRFIAKKTPSEILA 122 (527)
T ss_pred HHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCHHHHH
T ss_conf 26777521312699999999996069988999999654152124899999999999986845689999998609679999
Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999874257468999999999999999999999986
Q gi|254780722|r 83 FFSTVISVQSQLGGNLSEALANLSRILRDRKNMKAKVQALS 123 (187)
Q Consensus 83 ~~~~~l~~~~~~gg~~~~~L~~la~~~~~~~~~~~~~~~~~ 123 (187)
T Consensus 123 dfL~Rla~ai~sGe~~~eFl~~E~~~~~~~y~~~Yer~LeS 163 (527)
T COG1955 123 DFLDRLAYALDSGEDLKEFLEREQDTTMDEYETEYERALES 163 (527)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999987742587379999999999999999999999988