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