# STOCKHOLM 1.0
#=GF ID CsrB
#=GF AC RF00018
#=GF DE CsrB/RsmB RNA family
#=GF AU Gardner PP; 0000-0002-7808-1213
#=GF GA 71.0
#=GF NC 70.9
#=GF TC 71.0
#=GF SE Bateman A
#=GF SS Predicted; PFOLD; Bateman A; Gardner PP;
#=GF TP Gene; sRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 19.98 -Z 2958934 CM SEQDB
#=GF CL CL00106
#=GF DR SO; 0000377; CsrB_RsmB_RNA;
#=GF DR GO; 0005515; protein binding;
#=GF RN [1]
#=GF RM 97362239
#=GF RT The RNA molecule CsrB binds to the global regulatory protein CsrA and
#=GF RT antagonizes its activity in Escherichia coli.
#=GF RA Liu MY, Gui G, Wei B, Preston JF 3rd, Oakford L, Yuksel U, Giedroc DP,
#=GF RA Romeo T
#=GF RL J Biol Chem 1997;272:17502-17510.
#=GF RN [2]
#=GF RM 7665490
#=GF RT Identification of a global repressor gene, rsmA, of Erwinia carotovora
#=GF RT subsp. carotovora that controls extracellular enzymes,
#=GF RT N-(3-oxohexanoyl)-L-homoserine lactone, and pathogenicity in soft-rotting
#=GF RT Erwinia spp.
#=GF RA Cui Y, Chatterjee A, Liu Y, Dumenyo CK, Chatterjee AK
#=GF RL J Bacteriol 1995;177:5108-5115.
#=GF RN [3]
#=GF RM 27298343
#=GF RT Temperature-responsive in vitro RNA structurome of Yersinia
#=GF RT pseudotuberculosis.
#=GF RA Righetti F, Nuss AM, Twittenhoff C, Beele S, Urban K, Will S, Bernhart SH,
#=GF RA Stadler PF, Dersch P, Narberhaus F
#=GF RL Proc Natl Acad Sci U S A. 2016;113:7237-7242.
#=GF RN [4]
#=GF RM 23251905
#=GF RT Crp induces switching of the CsrB and CsrC RNAs in Yersinia
#=GF RT pseudotuberculosis and links nutritional status to virulence.
#=GF RA Heroven AK, Sest M, Pisano F, Scheb-Wetzel M, Steinmann R, Bohme K, Klein
#=GF RA J, Munch R, Schomburg D, Dersch P
#=GF RL Front Cell Infect Microbiol. 2012;2:158.
#=GF RN [5]
#=GF RM 29091941
#=GF RT CsrB, a noncoding regulatory RNA, is required for BarA-dependent
#=GF RT expression of biocontrol traits in Rahnella aquatilis HX2.
#=GF RA Mei L, Xu S, Lu P, Lin H, Guo Y, Wang Y
#=GF RL PLoS One. 2017;12:e0187492.
#=GF RN [6]
#=GF RM 18052890
#=GF RT Dynamic regulation of GacA in type III secretion, pectinase gene
#=GF RT expression, pellicle formation, and pathogenicity of Dickeya dadantii
#=GF RT (Erwinia chrysanthemi 3937).
#=GF RA Yang S, Peng Q, Zhang Q, Yi X, Choi CJ, Reedy RM, Charkowski AO, Yang CH
#=GF RL Mol Plant Microbe Interact. 2008;21:133-142.
#=GF RN [7]
#=GF RM 18441056
#=GF RT Regulatory network controlling extracellular proteins in Erwinia
#=GF RT carotovora subsp. carotovora: FlhDC, the master regulator of flagellar
#=GF RT genes, activates rsmB regulatory RNA production by affecting gacA and hexA
#=GF RT (lrhA) expression.
#=GF RA Cui Y, Chatterjee A, Yang H, Chatterjee AK
#=GF RL J Bacteriol. 2008;190:4610-4623.
#=GF RN [8]
#=GF RM 26462993
#=GF RT Cross-talk between a regulatory small RNA, cyclic-di-GMP signalling and
#=GF RT flagellar regulator FlhDC for virulence and bacterial behaviours.
#=GF RA Yuan X, Khokhani D, Wu X, Yang F, Biener G, Koestler BJ, Raicu V, He C,
#=GF RA Waters CM, Sundin GW, Tian F, Yang CH
#=GF RL Environ Microbiol. 2015;17:4745-4763.
#=GF CC The CsrB RNA binds to approximately 18 copies of the CsrA protein
#=GF CC Pfam:PF02599. CsrA proteins are found in a wide variety of bacteria. The
#=GF CC CsrB RNAs contain a conserved motif CAGGXXG that is found in up to 18
#=GF CC copies and has been suggested to bind CsrA. The Csr regulatory system has
#=GF CC a strong negative regulatory effect on glycogen biosynthesis,
#=GF CC glyconeogenesis and glycogen catabolism and a positive regulatory effect
#=GF CC on glycolysis [1]. In other bacteria such as Erwinia caratovara the RsmA
#=GF CC protein has been shown to regulate the production of virulence
#=GF CC determinants, such extracellular enzymes [2]. RsmA binds to RsmB
#=GF CC regulatory RNA which is also a member of this family [2]. RsmB RNA was
#=GF CC shown to be upregulated by GacS/A system, and increase downstream T3SS
#=GF CC gene expression.[6] FlhDC, the master regulator of flagellar genes, also
#=GF CC activates rsmB RNA production.[7] A regulatory network have been revealed
#=GF CC connecting rsmB, FlhDC and T3SS.[8] Plays role in the biocontrol activity
#=GF CC of Rahnella aquatilis HX2 (a biocontrol agent producing antibacterial
#=GF CC substance).[5]
#=GF WK CsrB/RsmB_RNA_family
#=GF SQ 38

AAYV01000020.1/39993-39672   GAUCUGGCGGAGAGGGAACGCAUCUGGAAGAUGUG-----------------------------------------------UCUUCAG-GAC-GAAGA-ACA-CAGGGA-CUGCUUAGGACGAGUGAAGG--GACGUUUCAGGAU-GAAACAAGGGACACCUCCAGGAUGGAGAUUGAGAGCC-AGUU-CA-GGAUGA-
CP000826.1/4199485-4199142   GAUACGGUGGAGCUGGAAAGCAUCAGGAUGAUGCAGCUUCAG---G-AUGAAGAAGU--------------------GGAUGCGCUCAGUGAA-GAGCG-----AAGGAC-GGCGUCAGGA-GAUGCUCAG--GAUGUUUCAGGAUUGAAACCAGGGACACCUCCAGGAUGGAGAUUGAGAGCU-GGCA-CA-GGAUGG-
AF076153.1/1958-2313         GAGUCGUACAACGAAGCGAACGUCAGGAUGAUGACGCUUCAG---C-AGGAC------------------------------ACGCCAG-GAU-GGUGUUACA-AGGAAA-GGCUUCAGGAUGAAGCAAAGUGGAAAGCGCAGGAU-GCGUUAAAGGACACCUCCAGGACGGAGAACGAGAGCC-GA-U-CA-GGAU-GU
AL627276.1/270587-270233     GAGUCGUACAACGAAGCGAACGUCAGGAUGAUGACGCUUCAG---C-AGGAC------------------------------ACGCCAG-GAU-GGUGUUACA-AGGAAA-GGCUUCAGGAUGAAGCAAAGUGGAAAGCGCAGGAU-GCGUUAAAGGACACCUCCAGGACGGAGAACGAGAGCC-GA-U-CA-GGAU-GU
CP000247.1/2917922-2917563   GAGUCAGACAACGAAGUGAACAUCAGGAUGAUGACACUUCUG---A-AGGAC------------------------------ACACCAG-GAU-GGUGUUUCA-GGGAAA-GGCUUCUGGAUGAAGCGAAGAGGAUGACGCAGGAC-GCGUUAAAGGACACCUCCAGGAUGGAGAAUGAGAACC-GG-U-CA-GGAUGAU
CP000653.1/3538029-3537674   AUGCCGACACGAGAAGCGAACAUCAGGAUGAUGACGUUUUUC---A-CCGAGG---------------------------AUACGUCAG-GAU-GGCGCUGCA-G--GAA-GGCUUAAGGAUGAAGCAAAAAGGAUCACGCAGGAC-GCGU-AAGGGACACCUCCAGGAAGGAGAAAGAGAACC-GG-U-CA-GGAU-GC
CP000647.1/3438829-3438471   ACGUCGCGAAAUGAAGCGAACAUCAGGAUGAUGGCGCUUCUG---C-AGGAC------------------------------CCGCCAG-GAC-GGCGUUGCA-GGGACA-GGCUUCAGGAUGAAGCAAGG--AUAACGC-AGGAU-CGCGUAAUGGACACCUCCAGGAUGGAGAACGAGAGCC-GC-U-CA-GGAUGA-
BX950851.1/1144364-1144719   CGUUACUGCACUCGGGCUGUUUUCAGGAAGAGACAUUGUUUU-----AGGAAGAAA---------------------CAGCCGCUUCAG-GAA-GAAGC-GCG-G-------UUUUCAGGAAGAAACACG------AUUUCAGGAU-GAAAUCAGGGACACCUCCAGGAAGGAGACCGAGAGCC-GA-U-UA-GGAAUG-
X79474.1/346-702             GUUUCAGGAAGAAGCGUUGUUUUCAGGAAGAUAAACAGUUUU---C-AGGAAGAUA---------------------AACAGUUUUCAG-GAA-GAAGA-ACA-G-------UUUUCAGGAAGAAACAUGA------UUUCAGGAU-GAAAUCAGGGACACCUCCAGGAAGGAGACCGAGAGCC-GA-U-UA-GGAAUA-
L13457.1/235-574             -----------------UCGUUUUAGGAAGAAACGAUCGUUU---C-AGGAAGAAG---------------------CGUUGUUUUCAG-GAA-GAAGA-ACG-G-------UUUUCAGGAAGAAACAUGG------UUUCAGGAU-GAAAUCAGGGACACCUCCAGGAAGGAGACCGAGAGCC-GA-U-UA-GGAAUA-
AM286415.1/3595708-3595388   GAUCUGGCGGAA-AGGACGGUAUCAGGAUGGUGCCA-----------------------------------------------CUUCAG-GAU-GAAGG-ACU-CAGGGA-CUGCUUAGGAUGAGUGAAGG--GAUGUUUCAGGAA-GAAACAAAGGACACCUCCAGGAUGGAGAUUGAGAGCC-AG-UCCA-GGAUGA-
ABKX01000001.1/604476-604836 GAGUCAGACAGCGAAGUGAACAUCAGGAUGAUGACACUUCUG---A-AGGAC------------------------------ACGCCAG-GAU-GGUGUUUCA-GGGAAA-GGCUUCUGGAUGAAGCGAAGAGGAUAACGCUGGAU-GCGUUAAAGGACACCUCCAGGAUGGAGAAUGAGAGCC-AG-U-CA-GGAUGAU
CU928158.2/283863-284220     GAGUCGCACAGUGAAGUGAACGUCAGGAAGAUGGCGCUUCAA---A-AGGAC------------------------------ACACCAG-GAC-GGUGC-UAC-AAGGAA-GACUUCAGGACGAAGUAUAAAGGAAAACGCAGGAU-GCGUUAAGGGACACCUCCAGGACGGAGAACGAGAGCU-GA-A-CA-GGAUGG-
CP000880.1/4597967-4598323   GAGUCGUACAACGAAGCGAACGUCAGGAAGAUGGCGCUUCUG---C-AGGAC------------------------------ACGCCAG-GAG-GGCGUUACA-UGGAAA-GGCUUCAGGAUGAGGCAAAGUGGAAAGCGCAGGAU-GCGUUAAAGGACACCUCCAGGACGGAGAACGAGAGCC-GA-U-UA-GGAUGG-
CP000783.1/487241-487598     CGGAGUGGCGCUGAAGCGAACAUCAGGAUGAUGGCGCUUCAA---AAAGGAC------------------------------ACGCC-G-GAG-GGCGA-UUC-AGGGAA-GGCUUCAGGAUGAAGCGAAA-GGACGGCGCAGGA--GCGCUGAGGGACACCUCCAGGAAGGAGAAUGUGAGCC-GG-U-CA-GGAUUA-
CP000822.1/3859356-3858998   GAGUCGCACAACGAAGCGAACGUCAGGAUGAUGGCGCUUCAG---C-AGGAC------------------------------ACGCCAG-GAU-GGUGUUACA-AGGACA-GGCUUCAGGAUGAAGCAAAGUGGAAAACGCCGGAU-GCGUUAAGGGACACCUCCAGGACGGAGAACGAGAGCC-GG-G-CA-GGAUGU-
AF031251.1/1-360             GAGUCAGACAACGAAGUGAACAUCAGGAUGAUGACACUUCUG---C-AGGAC------------------------------ACACCAG-GAU-GGUGUUUCA-GGGAAA-GGCUUCUGGAUGAAGCGAAGAGGAUGACGCAGGAC-GCGUUAAAGGACACCUCCAGGAUGGAGAAUGAGAACC-GG-U-CA-GGAUGAU
FJ465142.1/214-524           GAGGCUCAGGAAAAAGAUAUCGUCAGGAUGAUGAUAAGCCAU---G-AGGCAGG--------------------------AACGUAACG-GAGCUUACG-GCACAAGGAA-GGUUUCAGGAUGAAACAGG---AUCGCUC-AGGAU-UGAGCAAGGGACACCUCCAGGAUGGAGAAUGAGAACCC-CCU-CA-GAAGAG-
BX936398.1/3550390-3550069   GAUCUGGCGGAGAGGGAACGCAUCUGGAAGAUGUG-----------------------------------------------UCUUCAG-GAC-GAAGA-ACA-CAGGGA-CUGCUUAGGACGAGUGAAGG--GACGUUUCAGGAU-GAAACAAGGGACACCUCCAGGAUGGAGAUUGAGAGCC-AGUU-CA-GGAUGA-
CP001164.1/3751312-3750953   GAGUCAGACAACGAAGUGAACAUCAGGAUGAUGACACUUCUG---A-AGGAC------------------------------ACACCAG-GAU-GGUGUUUCA-GGGAAA-GGCUUCUGGAUGAAGCGAAGAGGAUGACGCAGGAC-GCGUUAAAGGACACCUCCAGGAUGGAGAAUGAGAACC-GG-U-CA-GGAUGAU
ABVY01000012.1/18391-18747   GUUUUAGGAAGAAACAGUCGUUUCAGGAAGAAGCGUUGUUUU---C-AGGAAGAUA---------------------AACAGUUUUCAG-GAA-GAAGA-ACA-G-------UUUUCAGGAAGAAACAUG------AUUUCAGGAU-GAAAUCAGGGACACCUCCAGGAAGGAGACCGAGAGCC-GA-U-UA-GGAAUA-
ABAT01000014.1/43523-43202   GAUCUGGCGGAGAGGGAACGCAUCUGGAAGAUGUG-----------------------------------------------UCUUCAG-GAC-GAAGA-ACA-CAGGGA-CUGCUUAGGACGAGUGAAGG--GACGUUUCAGGAU-GAAACAAGGGACACCUCCAGGAUGGAGAUUGAGAGCC-AGUU-CA-GGAUGA-
CAAT01000037.1/31831-32186   GAGUCGUACAACGAAGCGAACGUCAGGAUGAUGACGCUUCAG---C-AGGAC------------------------------ACGCCAG-GAU-GGUGUUACA-AGGAAA-GGCUUCAGGAUGAAGCAAAGUGGAAAGCGCAGGAU-GCGUUAAAGGACACCUCCAGGACGGAGAACGAGAGCC-GA-U-CA-GGAUGU-
CAAQ01004577.1/1374-1732     GAGUCGUACAACGAAGCGAACGUCAGGAUGAUGACGCUUCAG---C-AGGAC------------------------------ACGCCAG-GAU-GGUGUUACA-AGGAAA-GGCUUCAGGAUGAAGCAAAGUGGAAAGCGCAGGAU-GCGUUAAAGGACACCUCCAGGACGGAGAACGAGAGCC-GA-U-CA-GGAUGU-
AP008232.1/3356002-3355655   UAAGCAAGGAACGCCCACUGAACCAGGAUUGUGCCG-----C---A-CGGAC------------------------------AGCGCAGGGAA-GGGUUAGUG-CAGCAACGGCCUCAGGAAGAAGCCCG---CAAAUUUCAGGAU-GAUACUCAGGACACCUCCAGGAUGGAGAAUGUGAGCU-GG-U-AACGGAACG-
ABVX01000043.1/11742-12098   UGUUUUAAGGAUAAACACUGUUUUAGGAAGAAACAGUCGCUU---C-AGGAAGAAG---------------------CGUUGUUUUCAG-GAA-GAAGA-ACA-G-------UUUUCAGGAAGAAACAUG------GUUUCAGGAU-GAAAUCAGGGACACCUCCAGGAAGGAGACCGAGAGCC-GA-U-UA-GGAAUA-
AAMJ02000040.1/17166-16807   GAGUCAGACAACGAAGUGAACAUCAGGAUGAUGACACUUCUG---C-AGGAC------------------------------ACACUAG-GAU-GGUGUUUCA-GGGAAA-GGCUUCUGGAUGAAGCGAAGAGGAUGACGCAGGAC-GCGUUAAAGGACACCUCCAGCAUGGAGAAUGAGAACC-GG-U-CA-GGAUGAU
CP000034.1/2780478-2780119   GAGUCAGACAACGAAGUGAACAUCAGGAUGAUGACACUUCUG---A-AGGAC------------------------------ACACCAG-GAU-GGUGUUUCA-GGGAAA-GGCUUCUGGAUGAAGCGAAGAGGAUGACGCAGGAC-GCGUUAAAGGACACCUCCAUGAUGGAGAAUGAGAACC-GG-U-CA-GGAUGAU
CP000964.1/999311-999670     AAGUCGCGAAAUGAAGCGAACAUCAGGAUGAUGGCGCUUCUG---C-AGGAC------------------------------CCGCCAG-GAU-GGCGUUGCA-AGGACA-GGCUUCAGGAUGAAGCAAGG---AUAACGCAGGAACGCGU-AAUGGACACCUCCAGGAUGGAGAACGAGAGCC-GC-U-CA-GGAUGA-
FM200053.1/2930345-2929990   GAGUCGUACAACGAAGCGAACGUCAGGAUGAUGACGCUUCAG---C-AGGAC------------------------------ACGCCAG-GAU-GGUGUUACA-AGGAAA-GGCUUCAGGAUGAAGCAAAGUGGAAAGCGCAGGAU-GCGUUAAAGGACACCUCCAGGACGGAGAACGAGAGCC-GA-U-CA-GGAUGU-
CU468135.1/3038137-3037797   CAGGAAGAGGUAAAGGAUACCUCCAGGAUGGAGACGCGCCGG---AAAGGAUAUUCGGCAGUUAUGGAUGAUGCCAGGAUCACUAUCGG-GAU-GAUAGAGCA-GGGACA-GGCUUCGGGAUGAAGCGCAG--GAGACCUCAGGAA-GAGGUAAAGGACACCUCCAGGACGGAGAAUGUGAGCC-GU-A-CA-GGAUUG-
CP001063.1/2875622-2875981   GAGUCAGACAACGAAGUGAACAUCAGGAUGAUGACACUUCUG---C-AGGAC------------------------------ACACCAA-GAU-GGUGUUUCA-GGGAAA-GGCUUCUGGAUGAAGCGAAGAGGAUGACGCAGGAC-GCGUUAAAGGACACCUCCAGGAUGGAGAAUGAGAACC-GG-U-CA-GGAUGAU
ACDJ01000018.1/54365-54009   GAGUCGCACAACGAAGAGAACAUCAGGAUGAUGGCUCUUCGC---C-AGGAC------------------------------ACACCAG-GAC-GGUGUUGCA-AGGACA-GGCUUCAGGACGAAGCAAAGAGGAAGACGCUGGAU-GCGUUAAAGGACACCUCCAGGAUGGAGAAUGAGAGCC-GG-U-CA-GGAUGU-
AALD02000009.1/85062-85382   GAUCUGGCGGAGAUGGAUGGUAUC-GGAUGCUACCA-----------------------------------------------CUUCAG-GAU-GAAGA-AUA-UAGGGA-CUGCUUAGGACGAGUGAAGG--GACGUUUCAGGAU-GAAACAUUGGACACCUCCAGGAUGGAGAUUGAGAGCCGGU-U-CA-GGAUGG-
ABWL02000021.1/191679-192035 GAGUCGCACAACGAAGAGAACAUCAGGAUGAUGGCUCUUCGC---C-AGGAC------------------------------ACACCAG-GAC-GGUGUUACA-AGGACA-GGCUUCAGGAUGAAGCAAAGUGGAAAGCGCGGGAU-GCGUUAAAGGACACCUCCAGGAUGGAGAAUGAGAGCC-GG-U-CA-GGAUGU-
AALE02000003.1/44248-43927   GAUCUGGUGGAGAAGGACGGUAUCAGGAUGGUGCCA-----------------------------------------------CUUCAG-GAU-GAAGA-ACA-CAGGGA-CUGCUUAGGAUGAGUGAAGG--GAUGUUUCAGGAU-GAAACCAAGGACACCUCCAGGAUGGAGAUUGAGAGCC-AGUU-CA-GGAUGA-
AALF02000009.1/41628-41307   GAUCUGGCGGAGAAGGACGGUAUCAGGAUGCUACCA-----------------------------------------------CUUCAG-GAU-GAAGA-ACA-CAGGGA-CUGCUUAGGAUGAGUGAAGG--GACGUUUCAGGAU-GAAACCAAGGACACCUCCAGGAUGGAGAUUGAGAGCCGGU-U-CA-GGAUGA-
ABWM02000033.1/161632-161274 ACGCCGACACGAGAAACGAACAUCAGGAUGAUGGCGUAUCUCAGCA-AGGAC------------------------------UCGUCAG-GAA-GGCGCUGCA-G--GAA-GGCUUCAGGAUGAAGCAAAGUGGAUAACGCAGGAU-GCGU-AAGGGACACCUCCAGGAAGGAGAACGAGAGCC-GG-U-CA-GGAUGG-
#=GC SS_cons                 ::::::::::::::::::::<<<_______>>>:::::::::...:.:::::..............................<<<<<__.___.>>>>>::::.::::::.:<<<<<_____>>>>>::::..:::<<<<<_____.>>>>>:::::::::<<<<_____>>>>:::::::<<<.<<.<.__._____>.
#=GC RF                      gAgucggagaAagaaGagaacauCAGGAUGaugacgcuUCug...a.AGGAc..............................ccgcCAG.GAu.GgcgguaCA.aaGaaA.GgcuUcAGGAugAagcaaaG..GAugucgCAGGAU.GcgacaAaGGACACCUCCAGGAuGGAGAauGAGAgCC.gg.u.cA.GGAuga.

AAYV01000020.1/39993-39672   UU-GGUG-GGUUAGGAUAGCC------------UA-AGGAUUAACG-------------CCGGGAUGGUGUA--U-----A-A--CAU-UGCGAUGG--------AUUGC-UGGUUAGUAUAACCAUA-CGGAAAAGUUUUCAGGGAU-UGAGCAGGGAGCAUC-AAUUUUAGCUGGAUUGCUAUAAAACGAAUUGAGGG
CP000826.1/4199485-4199142   UU-GGCG-GGUCAUGAAGACUGAG--GAACCGCGUCAGGACGAUG--CUA----------CAGGACAGAG-----CCAGGA-UGG----------------------UUU-UGGUCAGGAUGGCCGCA--GGAAAAGUUUUCAAGGAU-UGAGCAGGGAGCACA-CUGUGUAGCGGGACUGCUAUAAAACGAACC-GAGG
AF076153.1/1958-2313         UC-GGCG-GGUCUGGAUGACCAGG--GA--CGCUUCAGGAAGAAG--CUA----UCACAUCGGGC-GAUGUG--CGCAGGA-UGCAAA-CGUUCAGG-----AUGAACA----GGCCGUAAGGUCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCACG-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
AL627276.1/270587-270233     UC-GGCG-GAUCUGGAUAACCAGG--GA--CGCUUCAGGAUGAAG--CUA----UCACAUCGGGC-GAUGUG--CGCAGGA-UGUAAA-CGUUCAGG-----AUGAACA----GGCCGUAAGGUCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCACG-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
CP000247.1/2917922-2917563   UC-GGUG-GGUCAGGAAGGCCAGG--AA--CACUUCAGGAUGAAG---UA----UCACAUCGGGGUGGUGUG--AGCAGGA-AGCAAU-AGUUCAGG-----AUGAACGA-UUGGCCGCAAGGCCAGA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCAAU-AAAAGUAGCCGGAAUGCUGCGAAACGAACC-GGGA
CP000653.1/3538029-3537674   CC-GGUG-GGUCAGGAAGAUCAGG---A--CGUUUCGGGAUGAAA--CAU----UCACAUCAGGAUGAUGUG--AGCAGGA-UGCGCG-GUUUACGG-----ACGACCA----GGCCCUCGGGCCACA--GGAAAAGUUGUCACGGAC--GAGCAGGGAGCACA-AAUUGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
CP000647.1/3438829-3438471   AC-GGUG-GAUCAGGAAGAUCGGG--AC--AAACUUAUGGAUAAG--UCAU--UUCGCAUCGGGGUGGUGUGAAAGCAGGA-UGCACG-UGUUUAUG----GAUGAACAU--GGUCAGGA-GACCUCA--GGAAAAGUUUUCAAGGAC--GAGCAGGGAGCACC-AAU-GUAGCGGGACUGCUGCAAAACGAACC-GGGA
BX950851.1/1144364-1144719   UC-GGUG-GGGCAGGA-GCCUAAA---G--GGAUUGA--AUCACG---GA----AGAUA-CAGGAUGGAAAC--GUCAGGA-CGAAAG-UGGGACGCCAGCAAGGAUUGU-GGGUCAGGAUGACCAAAAAGGAAAAGUUUUCACGGAU--GAGCAGGGAUGCAA-AUGUGUAGCGGGAUAGCUAUAAAACGAACC-GGGG
X79474.1/346-702             UC-GGUG-GGGCAGGA-GCCUAAA---G--GGAUUGA--AUCACG---GA----AGAUA-CAGGAUGGAAAC--GUCAGGA-AGAAAG-UGGGACGCCAGCAAGGAUUGU-GGGUUAGGACGACCAAAAAGGAAAAGUUUUCACGGAU--GAGCAGGGAUGCAA-AUGUGUAGCGGGAUAGCUAUAAAACGAACC-GGGG
L13457.1/235-574             UC-GGUG-GGGCAGGA-GCCUAAA---G--GGAUUGA--AUCACG---GA----AGAUA-CAGGAUGGACAC--GUCAGGA-AGAAAG-UGGGACGCCAGCAAGGAUUGU-GGGUUAGGACGACCAAAAAGGAAAAGUUUUCACGGAU--GAGCAGGGAUGCAA-AUGUGUAGCGGGAUAGCUAUAAAACGAACC-GGGG
AM286415.1/3595708-3595388   UU-GGUG-GGUUAGGAUAACU-------------UCAGGAUUGGC-------------ACUGGGAUGGU------GUAGGACAAC-----GCGACGG--------AUUGC-UGGUUAGGAUAACCGCA-CGGAAAAGUUUUCAAGGAU-UGAGCAGGGAGCAUC-ACUUUUAGCUGGAUUGCUAUGAAACGAAUAGAGGG
ABKX01000001.1/604476-604836 UU-GGCG-GGUCAGGAAGGCCAGG--GA--CGCUUCAGGAUGAAG--UAA----UCACGCCGGGGUGGUGUG--UGCAGGA-AGCAAU-AGUUCAGG-----AAGAACGA-UUGGCCGCAAGGCCAGA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCAAC-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
CU928158.2/283863-284220     UC-AGUG-GGUCAGGAAGGCCAGG---A--UGCUUCAGGAUGAAG--UAA----UCACACCGGGGUGGUGUG--UGCAGGA-UGCGCG-AGUUCAGG-----ACGAACAA-CAGGUCGCAAGACCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCAAC-AAAUGUAGCUGGAAUGCUGCAAAACGAAUC-GGGA
CP000880.1/4597967-4598323   UC-GGCG-GGUCUGGAUGACCAGG--GA--CGCUUCGGGAUGAAG--CUA----UCACAUCGGGGCGAUGUG--CGCAGGA-UGCAAA-CGUUCAGG-----AUGAGCA----GGCCGCAGGGUCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCAUG-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
CP000783.1/487241-487598     CC-GGUG-GGUCAGGAAGACCAGGGACA--CGCAUCAGGAUGAUG---CACCAGUGACAUCAGGACGAUGUG--GGCAGGA-CGC-----GUAAACG--------GACGU-AAGGUCGAAAGGCCGCA--GGAAAAGUUGUCACGGAC--GAGCAGGGAGCACCGAAAAGUAGCCGGACUGCUGCGAAACGAACC-GGGA
CP000822.1/3859356-3858998   UC-GGUG-GGUCAGGAUGGCCAGG---A--UACUUCAGGAUGAAGUCGAU----UCACAUCGGGGUGAUGUG--AGCAGGA-UGCAAAUUGUUCAGG-----AUGAGCA----GGUCGCAAGACCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCACC-AAAAGUAGCCGGAAUGCUGCGAAACGAACC-GGGA
AF031251.1/1-360             UC-GGUG-GGUCAGGAAGGCCAGG--GA--CACUUCAGGAUGAAG---UA----UCACAUCGGGGUGGUGUG--AGCAGGA-AGCAAU-AGUUCAGG-----AUGAACGA-UUGGCCGCAAGGCCAGA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCAAC-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
FJ465142.1/214-524           G-UGGUG-GGCCAGGA-UGCU--------------AAGGA-U--------------ACA----------------UCAGGA-CGA----------------------UGC-GCGACAGGAGUUCGCAC-UGGACAAGUUGUCAUGGAA--GAGCAGGGAGCAUU-AAC-GUGGCGGGAUGGCUGCA-AACGAACC-GGGA
BX936398.1/3550390-3550069   UU-GGUG-GGUUAGGAUAGCC-------------UAAGGAUUAAC-------------GCCGGGAUGGUGUA--U-----A-A--CAU-UGCGAUGG--------AUUGC-UGGUUAGUAUAACCAUA-CGGAAAAGUUUUCAGGGAU-UGAGCAGGGAGCAUC-AAUUUUAGCUGGAUUGCUAUAAAACGAAUUGAGGG
CP001164.1/3751312-3750953   UC-GGUG-GGUCAGGAAGGCCUGG--GA--CACUUCAGGAUGAAG---UA----UCACAUCGGGGUGGUGUG--AGCAGGA-AGCAAU-AGUUCAGG-----AUGAACGA-UUGGCCGCAUGGCCAGA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCAAC-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
ABVY01000012.1/18391-18747   UC-GGUG-GGGCAGGA-GCCUAAA---G--GGAUUGA--AUCACG---GA----AGAUA-CAGGAUGGAAAC--GUCAGGA-AGAAAG-UGGGACGCCAGCAAGGAUUGU-GGGUUAGGACGACCAAAAAGGAAAAGUUUUCACGGAU--GAGCAGGGAUGCAA-AUGUGUAGCGGGAUAGCUAUAAAACGAACC-GGGG
ABAT01000014.1/43523-43202   UU-GGUG-GGUUAGGAUAGCC-------------UAAGGAUUAAC-------------GCCGGGAUGGUGUA--U-----A-A--CAU-UGCGAUGG--------AUUGC-UGGUUAGUAUAACCAUA-CGGAAAAGUUUUCAGGGAU-UGAGCAGGGAGCAUC-AAUUUUAGCUGGAUUGCUAUAAAACGAAUUGAGGG
CAAT01000037.1/31831-32186   UC-GGCG-GAUCUGGAUAACCAGG--GA--CGCUUCAGGAUGAAG--CUA----UCACAUCGGGC-GAUGUG--CGCAGGA-UGUAAA-CGUUCAGG-----AUGAACA----GGCCGUAAGGUCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCACG-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
CAAQ01004577.1/1374-1732     UC-GGCG-GAUCUGGAUAACCAGG--GA--CGCUUCAGGAUGAAG--CUA----UCACAUCGGGC-GAUGUG--CGCAGGA-UGUAAA-CGUUCAGG-----AUGAACA----GGCCGUAAGGUCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCAACGAAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
AP008232.1/3356002-3355655   CC-AGCGAAGCAGGGACUGCU-------------GCAGGACAUAC--GUU----UGAUAACGUAGGCGUGGC--GCAAGGA-UGGGUU-UUGCCAAC-----AUGGAUUG-UUGCAAUGUUAUCUUGU--AUAACAAGUGUUAUGGAGGUAGGCAGGGAGCAUA-AAC-GUAGCGGGAUUGCUAUAAAACGAACC-GGGG
ABVX01000043.1/11742-12098   UC-GGUG-GGGCAGGA-GCCUAAA---G--GGAUUGA--AUCACG---GA----AGAUA-CAGGAUGGAAAC--GUCAGGA-AGAAAG-UGGGACGCCAGCAAGGAUUGU-GGGUUAGGACGACCAAAAAGGAAAAGUUUUCACGGAU--GAGCAGGGAUGCAA-AUGUGUAGCGGGAUAGCUAUAAAACGAACC-GGGG
AAMJ02000040.1/17166-16807   UC-GGUG-GGUCAGGAAGGCCAGG--GA--CACUUCAGGAUGAAG---UA----UCACAUCGGGGUGGUGUG--AGCAGGA-AGCAAU-AGUUCAGA-----AUGAACGA-UUGGCCGCAAGGCCAGA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCAAC-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
CP000034.1/2780478-2780119   UC-GGUG-GGUCAGGAAGGCCAGG--GA--CACUUCAGGAUGAAG---UA----UCACAUCGGGGUGGUGUG--AGCAGGA-AGCAAU-AGUUCAGG-----AUGAACGA-UUGGCCGCAAGGCCAGA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCAAC-AAAUGUAGCUGGAAUGCUGCGAAACUAACC-GGGA
CP000964.1/999311-999670     AC-GGUG-GAUCAGGAAGAUCGGGA-CA--AACUUAAGGAUAAGUC-AUU----UCGCAUCGGGGUGGUGUGAAAGCAGGA-UGCGCG-AGUUUAUG----GAUGAACAU-UGGUCAGGA-GACCUCA--GGAAAAGUUUUCAAGGAC--GAGCAGGGAGCACC-AAU-GUAGCGGGAAUGCUGCAAAACGAACC-GGGA
FM200053.1/2930345-2929990   UC-GGCG-GGUCUGGAUGACCAGG--GA--CGCUUCAGGAUGAAG--CUA----UCACAUCGGGC-GAUGUG--CGCAGGA-UGUAAA-CGUUCAGG-----AUGAACA----GGCCGUAAGGUCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCACG-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
CU468135.1/3038137-3037797   UA-GGCG----------UUCAGGG---A--UGUCAAAGGAUUACC-----------------------------GUCAGGA-AGA----------------------UGUUUGCUCAGGAGAGCGAAA--GGAAUAGUUUUCAAGGAU--GAGCAGGGAGCAUA-AAG-GUAGCUGGACCGCUGCG-AACGAACC-GGGG
CP001063.1/2875622-2875981   UC-GGCU-GGUCAGGAAGGCCAAG--GA--CACUUCAGGAUGAAG---UA----UCACAUCGGGGUGGUGUG--AGCAGGA-AGCAAU-AGUUCAGG-----AUGAACGA-UUGGCCGCAAGGCCAGA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCAAC-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
ACDJ01000018.1/54365-54009   UC-GGCG-GGUCUGGAUGGCCAGG---A--UACUUCAGGAUGAAG--UUU----UCACAUCGGGGUGAUGUG--AGCAGGA-UGCAGA-AGUUCAGG-----AUGAACAC---GGUCGCAAGACCACA--GGAAAAGUUGUCAAGGAU--GAGCAGGGAGCACU-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
AALD02000009.1/85062-85382   AU-GGUG-GGUUAGGAUAACU-------------UCAGGAUUAGC-------------ACCGGGAUGGU------GUAGGACAAC-----GCUACGG--------AUUGC-AGGUUAGGAUAACCAAA-CGGAAAAGUUUUCAAGGAU-UGAGCAGGGAGCAUC-ACUUUUAGCGGGAUCGCUAUGAAACGAAUCGAGGG
ABWL02000021.1/191679-192035 UC-GGCG-GGUCAGGAUGGCUAGG---A--CACUUCAGGAUGAAG--UUU----UCACAUCGGGGUGAUGUG--AGCAGGA-UGCAAA-CGUUCAGG-----AUGAACAA---GGUCGCAAGACCACA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCACU-AAAAGUAGCUGGAAUGCUGCGAAACGAACC-GGGA
AALE02000003.1/44248-43927   UU-GGUG-GGUUAGGAUAACC------------UU-AGGAUUGACG-------------CCGGGAUGGU------GUAGGACAAC-----GCGACGG--------AUUGC-UGGUUAGGAUAACCACA-CGGAAAAGUUUUCAAGGAU-UGAGCAGGGAGCAUC-AAUUUUAGCUGGAUUGCUAUGAAACGAAUUGAGGG
AALF02000009.1/41628-41307   AU-GGUG-GGUUAGGAUAACC-----------UC--AGGAUUAGC-------------AUCGGGAUGGU------GUAGGA-AAC----UGCGAUGG--------AUUGC-UGGUUAGGAUAACCAUA-CGGAAAAGUUUUCAUGGAU-UGAGCAGGGAGCAUC-ACUUUUAGCGGGAUAGCUAUGAAACGAAUUGAGGG
ABWM02000033.1/161632-161274 UC-GGUG-GGUCAGGAAGGCCAGG---A--CGUUUCAGGACGAAA--CAC----ACACAUCAGGAUGAUGUG--AGCAGGA-UGCAAC-GGUUAACG-----GAUAACCA-ACGCCCUUCGGGCAUCA--GGAAAAGUUGUCACGGAU--GAGCAGGGAGCACG-AAUUGUAGCUGGAAUGCUGCGGAACGAACC-GGGA
#=GC SS_cons                 >>.>>>:.<<<_______>>>:::...:..::<<<<_____>>>>...::....::::::::::::::::::..:<<____._>>:::.::::::::.....::::::::.:::::::::::::::::..::::::::::<<______..>>::::::::::::.::::<<<<<______>>>>>::::::::::.<<<<
#=GC RF                      cc.GGcG.GGccAGGAuggCCAgG...A..cgcuucAGGAUgaag...ua....ucAcAuCgGGaUGGUGug..agcAGGA.ugcaau.uGuuaagg.....AuGAaugu.ugGuuaGgAugaCcaaA..GGAAAAGUUgUCAaGGAU..GAGCAGGGAGCAua.AaauguAGCuGGAuuGCUacaAAACGAACC.GGGg

AAYV01000020.1/39993-39672   G-UACUG--GUAAAACAGUA--C-CCCUUUUUUGUGCC
CP000826.1/4199485-4199142   G-CACUG--UUAGCGCAGUG--C-CCUCAACUUUUUAU
AF076153.1/1958-2313         G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUUGU
AL627276.1/270587-270233     G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUGU-
CP000247.1/2917922-2917563   G-CACUG--UGAAUACAGUG--C-UCCCUUUUUUUAUU
CP000653.1/3538029-3537674   G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUGUU
CP000647.1/3438829-3438471   G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUAUU
BX950851.1/1144364-1144719   G-UGCUG--AGCAAUCAGUA--C-CCCCAACUUUUUGC
X79474.1/346-702             G-UACUG--AGCAAUCAGUA--C-CCCCAAUUUUUUGC
L13457.1/235-574             G-UACUG--AGUAAUCAGUA--C-CCCCAAUUUUUUGC
AM286415.1/3595708-3595388   G-UACUG--GUAAAACAGUA--C-CCCUUUUUUUAUCC
ABKX01000001.1/604476-604836 G-CACUG--UGAAUACAGUG--C-UCCCUUUUUUUAUU
CU928158.2/283863-284220     G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUAUU
CP000880.1/4597967-4598323   G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUGUU
CP000783.1/487241-487598     G-CACUGUGUUAUCACAGUG--C-UCCCUUUUUUUAUG
CP000822.1/3859356-3858998   G-CACUG--UUUUUACAGUG--C-UCCCUUUUUUUUAU
AF031251.1/1-360             G-CGCUG--UGAAUACAGUG--C-UCCCUUUUUUUAUU
FJ465142.1/214-524           G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUGUG
BX936398.1/3550390-3550069   G-UACUG--GUAAAACAGUA--C-CCCUUUUUUUGUUU
CP001164.1/3751312-3750953   G-CACUG--UGAAUACAGUG--C-UCCCUUUUUUUAUU
ABVY01000012.1/18391-18747   G-UACUG--AGCAAUCAGUA--C-CCCCAAUUUUUUGC
ABAT01000014.1/43523-43202   G-UACUG--GUAAAACAGUA--C-CCCUUUUUGUGCCC
CAAT01000037.1/31831-32186   G-CACUG--UUUAUACAGUG--C-UUCCCUUUUUUUGU
CAAQ01004577.1/1374-1732     -GCACUG--UUUAUACAGUGUC-UUCCCUUUUUUUGUU
AP008232.1/3356002-3355655   G-UACUG--UGUAAACAGUA--C-CCCCUUUUCUUUGA
ABVX01000043.1/11742-12098   G-UACUG--AGCAAUCAGUA--C-CCCCAAUUUUUUGC
AAMJ02000040.1/17166-16807   G-CACUG--UGAAUACAGUG--C-UCCCUUUUUUUAUU
CP000034.1/2780478-2780119   G-CACUG--UGAAUACAGUG--C-UCCCUUUUUUUAUU
CP000964.1/999311-999670     G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUAUU
FM200053.1/2930345-2929990   G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUUUG
CU468135.1/3038137-3037797   G-CACUG--UGUAAACAGUG--C-CCCUUUUUUUGUUG
CP001063.1/2875622-2875981   G-CGCUG--UGAAUACAGUG--C-UCCCUUUUUUUAUU
ACDJ01000018.1/54365-54009   G-CACUG--UUUUUACAGUG--C-UCCCUUUUUUUAUU
AALD02000009.1/85062-85382   G-UACUG--GUAAAACAGUA--C-CCCUUUUUUUAUUC
ABWL02000021.1/191679-192035 G-CACUG--UUUUUACAGUG--C-UCCCUUUUUUUAUU
AALE02000003.1/44248-43927   G-UACUG--GUAAAACAGUA--C-CCCUUUUUUUAUCU
AALF02000009.1/41628-41307   G-UACUG--GUAAAACAGUA--C-CCCUUUUUUUAUGC
ABWM02000033.1/161632-161274 G-CACUG--UUUAUACAGUG--C-UCCCUUUUUUUAUU
#=GC SS_cons                 <.<<<<<..______>>>>>..>.>>>>::::::::::
#=GC RF                      G.cACUG..uuuAuACAGUg..C.cCCCUUUUUUUuuu
//
