HHsearch alignment for GI: 254780378 and conserved domain: COG4787
>COG4787 FlgF Flagellar basal body rod protein [Cell motility and secretion].
Probab=100.00 E-value=0 Score=354.56 Aligned_cols=240 Identities=28% Similarity=0.420 Sum_probs=206.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCC
Q ss_conf 04899999999999965999775421777340000222999998764025676655566545666311442021123223
Q gi|254780378|r 2 KAFMIAAAGMSAQQTNLEIIANNIANINTTGYKRARAEFADFLYQAEKVAGSPSQSADKAVVPEGISIGSGVQISSVRNV 81 (262)
Q Consensus 2 r~ly~a~sgm~a~~~~l~~isnNlAN~nT~GfK~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~gv~~~~~~~~ 81 (262)
T Consensus 3 ~aiy~aM~aA~Q~l~~qa~~ANNLAN~STtGFraql~a~rav~-----v~g------------~~~ptrt~~~~s~pg~d 65 (251)
T COG4787 3 HAIYTAMGAASQLLEQQAVTANNLANASTTGFRAQLNAARAVQ-----VHG------------DSLPTRTFVMASTPGTD 65 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCC-----CCC------------CCCCHHEEEECCCCCCC
T ss_conf 3789887888888998887751421356631789998863012-----468------------87520103541467656
Q ss_pred CCCCCCCCCCCEEEEEECCCCEEEEECCCCCEEEEEEEEEEECCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCCCEE
Q ss_conf 3578733265212123237752653148985778752122352588341466761044---3101356532210133125
Q gi|254780378|r 82 YTQGEVVHTGNNLDLALVGRGWFQVETPDKTVMYTRAGSFNIDSKGQLVTADGNTLVP---GIVIPEETREIKVSRSGQI 158 (262)
Q Consensus 82 ~~qG~l~~Tg~~lD~Ai~G~Gff~V~~~~G~~~yTR~G~f~~d~~G~Lvt~~G~~vl~---~~~~p~~~~~i~i~~dG~I 158 (262)
T Consensus 66 ~spG~l~~TgR~LDvaiq~DGwlaVq~~dG~EaYTRnG~~qI~a~g-~lTiqg~pViG~ggpI~vPp~-~~v~I~~DGtI 143 (251)
T COG4787 66 MSPGSLDYTGRPLDVAIQGDGWLAVQDADGSEAYTRNGNIQIDATG-QLTIQGHPVIGEGGPITVPPG-AKVTIAADGTI 143 (251)
T ss_pred CCCCCCCCCCCCCEEEECCCCEEEEECCCCCCHHEECCCEEECCCC-CEECCCCEEECCCCCCCCCCC-CEEEEECCCEE
T ss_conf 7886101368853079736856999868875011115746787654-151279711158985326998-65898038558
Q ss_pred EECCCCCC--CCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHH
Q ss_conf 52158865--4322211000002662001006886433466665520002467762068607300102349999999999
Q gi|254780378|r 159 LAVTGKNS--DFQPVGQLLIANFINEAGLRNIGDNLLARTSVSGDPIISNPDDIGFAHVKQGYLEASNVDAVKEISEMIS 236 (262)
Q Consensus 159 ~~~~~~~~--~~~~i~~i~l~~f~n~~~L~~~g~~l~~~~~~~g~~~~~~~~~~~~~~v~qG~LE~SNVd~~~Emv~lI~ 236 (262)
T Consensus 144 sa~~~g~~~~~va~vgrlKLV~-~~~~~~~~g~dGLF~l~~e~~q~~~~~~~~d~~vrV~sG~LE~SNVnav~~Mt~mI~ 222 (251)
T COG4787 144 SALNPGDPANTVAVVGRLKLVQ-ATGQEVQRGDDGLFRLTAETQQPRGQVLKADPSVRVMSGALEGSNVNAVEEMTDMIS 222 (251)
T ss_pred EECCCCCCCCCEEECCEEEEEE-CCHHHHHCCCCCEEEECHHHCCCCCCCCCCCCCEEEECCCCCCCCCCHHHHHHHHHH
T ss_conf 7316899998410103068960-686885148885078235334877664567973465114134565337999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 9999999999999999999998715
Q gi|254780378|r 237 AQRAYEMNSKVIEAADEMSSLITKM 261 (262)
Q Consensus 237 ~qR~ye~n~k~i~t~Dem~~~~~~l 261 (262)
T Consensus 223 ~aRqfEmqmKmist~d~na~~anqL 247 (251)
T COG4787 223 LARQFEMQMKMISTADDNAGAANQL 247 (251)
T ss_pred HHHHHHHHHHHHHHHHCCHHHHHHH
T ss_conf 8888898898875421006889878