HHsearch alignment for GI: 254780522 and conserved domain: pfam02561
>pfam02561 FliS Flagellar protein FliS. FliS is coded for by the FliD operon and is transcribed in conjunction with FliD and FliT, however this protein has no known function.
Probab=96.09 E-value=0.11 Score=29.94 Aligned_cols=107 Identities=15% Similarity=0.175 Sum_probs=83.0
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf 2699999972237979999999999999999998368--88399999999999999999999609889989899999999
Q gi|254780522|r 2 RQYYHETIQESSIECRKREHWILDRSISLLSIAHKSL--PNSKQAVEALFYTSRVWVVFIQDLVSEDNHLPQEVKLNLIS 79 (114)
Q Consensus 2 r~~Y~~~~~~s~~~~R~~E~~~l~~~~~~L~~A~~~~--~~~~~~~eAL~~N~rLWt~~~~dl~~~~N~LP~~LRa~Lis 79 (114)
T Consensus 5 y~aY~~~~v~-tasp~~Li~mLydg~i~~l~~a~~ai~~~d~~~~~~~l~ka~~Ii~~L~~sLd~e---~GgeiA~nL~~ 80 (122)
T pfam02561 5 YQAYQQNAVN-TASPLELIIMLYDKAIKALVRAAEFIENEDIEKKNENISKAQNIITELRSTLDEE---KGGEIAQNLLA 80 (122)
T ss_pred HHHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCC---CCHHHHHHHHH
T ss_conf 9999998682-2999999999999999999999999885789999999999999999999750853---36399998999
Q ss_pred HHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHHH
Q ss_conf 999999999-999547843127999999999951
Q gi|254780522|r 80 IGLWVLKEC-ERIRRNKSNSYQDIIDVISIVRDG 112 (114)
Q Consensus 80 L~~fv~~~t-~~v~~~~~~~l~~LI~IN~~I~~G 112 (114)
T Consensus 81 LY~~~~~~L~~An~~~d~~~l~ev~~~l~~lrea 114 (122)
T pfam02561 81 IYTYMNKRLVQANLKNDASKLDEVEALLRDLREA 114 (122)
T ss_pred HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHH
T ss_conf 9999999999988768999999999999999999