HHsearch alignment for GI: 254780729 and conserved domain: COG4960

>COG4960 CpaA Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion].
Probab=99.97  E-value=2.2e-30  Score=192.90  Aligned_cols=166  Identities=37%  Similarity=0.621  Sum_probs=147.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             55999999999999999999998897501248999999999999960789979999999999999999999998200172
Q gi|254780729|r    4 SKMVFSAVFLIPPFCLVFAALSDLFSAMIPNRVSIVMLGSFLLTAFLLGMDYELIALHLLVGLIVFIICFCFFAFNIMGG   83 (176)
Q Consensus         4 ~~mi~~~~~~i~~~~Lv~~a~~Dl~~~~IPn~l~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~mG~   83 (176)
T Consensus         1 ~~~~~~~~~l~~~~~~~~aa~sDi~s~~IpN~lv~~ll~~~~i~a~~~~~~la~~~~~~~~~~i~l~~~f~Lfa~g~MGg   80 (168)
T COG4960           1 MDMIIASLFLIFPVLLVFAAYSDIRSRTIPNRLVLVLLLAFAILAPVAGMPLAGAGLSLAGAAIALALGFGLFALGVMGG   80 (168)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf             92889999999999999999999878200448999999999999998478589979999999999999999998276675


Q ss_pred             CHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCCCCCHHHHHCCCCCCCHHHHHHHHHHHHH
Q ss_conf             04999999999834066799999999999999999999930234433-21112110222112898819999999999996
Q gi|254780729|r   84 GDVKLLTSTAVWFGWTPSFLSFLFFVAILGGILSVFILTVRMITNHI-PIFGMFVPKSFLMKNKIPYGIAISMGGLISYP  162 (176)
Q Consensus        84 GDvKL~aa~g~~lG~~~~l~~~l~~s~i~G~v~~l~~l~~~~~~~~~-~~~~~~~~~~~~~~~~iPfG~aia~g~l~~~~  162 (176)
T Consensus        81 GDvKLlav~~l~~g~~~~L~-f~l~t~v~Ggvltv~iLllr~~~~~~~~~~~~~~~~~~~~~~~iPyg~Ai~~g~laa~~  159 (168)
T COG4960          81 GDVKLLAVLGLWLGPLQALY-FLLYTSVAGGVLTVAILLLRRVDLSAAAFKAPWLRRLLTPKGSIPYGVAIALGALAALP  159 (168)
T ss_pred             CHHHHHHHHHHHHCHHHHHH-HHHHHHHHHHHHHHHHHHHHCCHHHHHHCCCCHHHHHCCCCCCCCCHHHCCCHHHHHCC
T ss_conf             13999999999808488999-99999999999999999996016678755661667605867787600201407998664


Q ss_pred             HHHHHHHH
Q ss_conf             31999999
Q gi|254780729|r  163 DSYLFKVA  170 (176)
Q Consensus       163 ~~~~~~~~  170 (176)
T Consensus       160 ~~~l~~~~  167 (168)
T COG4960         160 ISPLMVSA  167 (168)
T ss_pred             CCHHHHHH
T ss_conf             11788861