HHsearch alignment for GI: 254780666 and conserved domain: PRK11933
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed.
Probab=100.00 E-value=0 Score=530.47 Aligned_cols=286 Identities=25% Similarity=0.456 Sum_probs=244.0
Q ss_pred HCCCHHHHHHHHHCCCHH-HHHHHHHHHCCCCCEEEEEC---CCHHHHHHHHHHH-------HCCCCCCEECCC---CCC
Q ss_conf 129978999988412679-99999996146983667615---9989999864321-------023566111045---678
Q gi|254780666|r 146 SIIPEWFKERLENFYGKE-RVLAISDACISPLYIDLTVK---FDIETWAHKLNAV-------MLPTGGIRLKEL---PES 211 (445)
Q Consensus 146 ~s~P~Wl~~~~~~~~G~~-~~~~l~~~~~~p~~l~i~~k---~~~~~~~~~L~~~-------~~~~~~~~~~~~---~~~ 211 (445)
T Consensus 2 ~~LP~~F~~~~~~llg~~~~~~~fl~~~~~p~~~~lRvN~lK~~~~~~~~~l~~~g~~~~pvpw~~~g~~~~~~~~~~~~ 81 (471)
T PRK11933 2 VYLPDAFLTQMREAMPSHLSMDDFIAACQRPLRRSIRVNTLKISVADFLQLMAPKGWTLTPIPWCEEGFWIERDDEDALP 81 (471)
T ss_pred CCCCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCC
T ss_conf 76839999999998678403999999856998865986798799999999877659963226867870698415545678
Q ss_pred HHHCHHHHHCCCEECCCCCCCCCCCC--CCCCCCCEECCCCCCCCCEEEE---CCCCCCHHHHHCCHHHHHHHHHHHHCC
Q ss_conf 55585011001013463212322235--6321331003556447000010---256841000105967987765443204
Q gi|254780666|r 212 IVSLPGFAEGVWWVQDASASIPVQLF--GTLNNLSVLDLCAAPGGKTAQL---IVSGAKVTALDVSKRRLEKLRCNLDRL 286 (445)
Q Consensus 212 i~~~~~f~eG~~~VQD~aSql~~~~l--~~~~g~~VLD~CAAPGGKT~~l---~~~~~~i~A~D~~~~Rl~~l~~~~~R~ 286 (445)
T Consensus 82 lg~~~~~~aG~~yiQe~ssm~~~~~l~~~p~pge~VLDlCAAPGGKtt~la~~m~~~G~lvAnd~~~~R~~~L~~n~~r~ 161 (471)
T PRK11933 82 LGNTAEHLSGLFYIQEASSMLPVAALFADDNAPQRVLDMAAAPGSKTTQIAALMNNQGALVANEYSASRVKVLHANISRC 161 (471)
T ss_pred CCCCHHHHCCEEEEECHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHHC
T ss_conf 88983664854999776885578885248899998999577854899999997589966999838899999999999971
Q ss_pred CCCCEEEEECCCCCCCC--CCCCCEEEECCCCCCCCHHHCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 88741772077445774--3447668961674211001101103332886677889999999999999860898289997
Q gi|254780666|r 287 HLYAEDIIEMDAFDYCP--KKLFDAVLVDAPCSSTGTIRRHPDVLWTRDTDDIVKSACFQRKLLLQGISFVKPGGIVVFS 364 (445)
Q Consensus 287 g~~~~~~~~~D~~~~~~--~~~fD~iLlDaPCSg~Gt~rr~Pd~~w~~~~~~l~~l~~~Q~~iL~~a~~~lk~gG~lvYs 364 (445)
T Consensus 162 G~~n~~vt~~d~~~~~~~~~~~FD~ILvDaPCSG~G~~rk~p~~~~~w~~~~~~~~~~~Q~~iL~~A~~~LkpGG~LVYS 241 (471)
T PRK11933 162 GVSNVALTHFDGRVFGAALPEMFDAILLDAPCSGEGTVRKDPDALKNWSPESNLEIAATQRELIESAFHALKPGGTLVYS 241 (471)
T ss_pred CCCCEEEEECCHHHHHHHCCCCCCEEEECCCCCCCEEECCCHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEE
T ss_conf 99847999358667403230106679987888887335559757641898799999999999999999873889689998
Q ss_pred ECCCCHHHCHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCEEEEEEEEECC
Q ss_conf 747883439998999999688741781376323355664345586880898876323557778886314667654127
Q gi|254780666|r 365 NCSLDKQDSEEVVQKVLRSSPIPVELVPLNSAYWKSIDMAMALSPEGWIRITPDMLEKIDGVSSGMDGFFAVALRRLI 442 (445)
Q Consensus 365 TCSi~~eEne~vV~~fL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~r~~P~~~~~~~~~~~g~DGFF~A~l~k~~ 442 (445)
T Consensus 242 TCT~~peENE~vv~~~l~~~p~~v~~~~l~~~~p---~~~~~~~~~g~~RlwPH~~--------~GEGhF~A~LrK~~ 308 (471)
T PRK11933 242 TCTLNREENQAVCLWLKETYGDAVEFESLGDLFP---GAEKALTEEGFLHVFPQIY--------DSEGFFVARLRKTA 308 (471)
T ss_pred CCCCCHHHHHHHHHHHHHHCCCCEECCCCCCCCC---CCCCCCCCCCCEEECCCCC--------CCCCEEEEEEEECC
T ss_conf 1799956679999999986886331033444577---7544567677478688865--------87744999998657