params (warning: commas chnged to semicolons),CM file,fastaFile,sequence #,EMBL accession,is in RFAMSEQ,sequence description (warning: commas chnged to semicolons),is reversed?,hit #,start nuc,end nuc,score (bits),hit sequence,hit Id(s) in Rfam with same seq,hit ranges within the same EMBL id,new hitness (0=in Rfam; 1=overlaps hit in Rfam;2=entirely new),amount of overlap with Rfam,this hit in Rfam format
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17951,AE001820.1,1,sp|AE001820.1|AE001820 Thermotoga maritima section 132 of 136 of the complete genome.,1,0,156,35,135.04,AAACGCUCUCGGGGCAGGGUGGAAUUCCCGACCGGCGGUGAAAGCCCGCGAGCCCUCUCAGGAGGGUUGACCCGGUGGAAUUCCGGGGCCGACGGUGAAAGUCCGGAUGGGAGAGAGCGUGA,AE001820.1/156-35,156-35,0,121,AE001820.1/156-35
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17974,AE001878.1,1,sp|AE001878.1|AE001878 Deinococcus radiodurans R1 section 15 of 229 of the complete chromosome 1.,0,1,30,178,94.21,GACCUCUUUCGGGGCGGGGCGAAAUUCCCCACCGGCGGUAAGUUCUCCCGAACAAGCCCGCGAAGCCCGCGCAAACCGCACCACGCGCCGGGCCCGAUGCCGCGCAACUCGGCAGCCGACGGUCACAGUCCGGACGAAAGAAGGAGGAG,AE001878.1/30-178,30-178,0,148,AE001878.1/30-178
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,19204,AE004431.1,1,sp|AE004431.1|AE004431 Vibrio cholerae chromosome II; section 88 of 93 of the complete chromosome.,1,2,9358,9220,127.24,CAAUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGUGGUAUGCCGCAAGGCGAGCCCACGAGCGCUCGAUUCGUCGAGGUCAGCAGAUCUGGUGAGAAGCCAGGGCCGACGGUUACAGUCCGGAUGAGAGAGAAUGACA,AE004431.1/9358-9220,9358-9220,0,138,AE004431.1/9358-9220
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,19592,AE004822.1,1,sp|AE004822.1|AE004822 Pseudomonas aeruginosa PAO1; section 383 of 529 of the complete genome.,1,3,2219,2057,123.33,UAACGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAUGGCGCGCAAGGCGCCUAGCCCGCGAGCGCUUGCCGGACCGGCCACCGCCGGACGACAAGGUCAGCAGACCCGGUGCGAUUCCGGGGCCGACGGUCAUAGUCCGGAUAAAGAGAGAACGGGA,AE004822.1/2219-2057,2219-2057,0,162,AE004822.1/2219-2057
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,20298,AE005534.1,1,sp|AE005534.1|AE005534 Escherichia coli O157:H7 EDL933 genome; contig 3 of 3; section 153 of 290.,1,4,2257,2109,137.50,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,AE000386.1/2256-2108 AE005534.1/2257-2109 AE015320.1/2277-2129 AP002564.1/19513-19365 AE016988.1/252559-252411 U28377.1/139106-138958,2257-2109,0,148,AE005534.1/2257-2109
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,20937,AE006176.1,1,sp|AE006176.1|AE006176 Pasteurella multocida PM70 section 143 of 204 of the complete genome.,1,5,9504,9349,133.93,GCGCAUUCUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUAAAUGUAUAACAUAAGCCCACGAGCGUUUACUAUUUCAUGUCACAAGAGAUAGUAAAGUCAGCAGAUUUGGUGAGAAUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAGAAUAAGC,AE006176.1/9504-9349,9504-9349,0,155,AE006176.1/9504-9349
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,21093,AE006333.1,1,sp|AE006333.1|AE006333 Lactococcus lactis subsp. lactis IL1403 section 95 of 218 of the complete genome.,0,6,7352,7468,133.76,AUAAAUCUUCAGGGCAGGGUGUAAUUCCCUACCGGCGGUAUAGCCCGCGAGCUGCUUGCAGCAUGAUUCGGUGAAACUCCGAGGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAUA,AE006333.1/7352-7468,7352-7468,0,116,AE006333.1/7352-7468
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,21120,AE006360.1,1,sp|AE006360.1|AE006360 Lactococcus lactis subsp. lactis IL1403 section 122 of 218 of the complete genome.,1,7,976,840,104.24,AAAUAUCUUCAGGGCACCGUGUAAUUCGGGACCGGCGGUAAAUAGGGCUUUGACCUUAUGACUCCGCGAUUCGCUACGGCGAUUGAAGCAGUGAGAAUCUGCUAGCGACAGUAAAGUCUGGAUGGAAGAAGAUGAAC,AE006360.1/976-840,976-840,0,136,AE006360.1/976-840
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,21251,AE006500.1,1,sp|AE006500.1|AE006500 Streptococcus pyogenes M1 GAS strain SF370; section 29 of 167 of the complete genome.,0,8,7207,7330,127.35,AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG,AE006500.1/7207-7330 AE009983.1/9380-9503,7207-7330,0,123,AE006500.1/7207-7330
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22078,AE007333.1,1,sp|AE007333.1|AE007333 Streptococcus pneumoniae TIGR4  section 16 of 194 of the complete genome.,1,9,6190,6076,131.41,AACUAUCUUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUAUAGCCCACGAGCCGAAAGGCAUGAUUUGGUGAAAUUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAAA,AE007333.1/6190-6076,6190-6076,0,114,AE007333.1/6190-6076
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22105,AE007360.1,1,sp|AE007360.1|AE007360 Streptococcus pneumoniae TIGR4  section 43 of 194 of the complete genome.,0,10,5168,5402,124.45,AAGAGUCUUCAGGGCAGGGUGAAAUUCCCGACCGGCGGUGACUUUAACUAGGAAAUGAUCUUUUCCUUUUAUACUUUGUUGACAAGCUUUGCCUAACCAGAAGUUAUGCCUACAGCUUGUCGCCUAGUCUAAAAGAAAAAUCUCUAUUUCCUUCUCUUUAAAGAAGUCCGUGAGCGCAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAUAGUCUGGAUGGGAGAAGACGAAA,AE007360.1/5168-5402,5168-5402,0,234,AE007360.1/5168-5402
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22318,AE007574.1,1,sp|AE007574.1|AE007574 Clostridium acetobutylicum ATCC824 section 62 of 356 of the complete genome.,0,11,3571,3685,121.87,GAUGUUCUUCAGGGAUGGGUGAAAUUCCCAAUCGGCGGUAAAGCCCGCAAGCCAUUUGGCAGAUCCGGUUAAACUCCGGGGCCGACAGUUAAAGUCUGGAUGAAAGAAGAAAUAG,AE007574.1/3571-3685,3571-3685,0,114,AE007574.1/3571-3685
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22525,AE007781.1,1,sp|AE007781.1|AE007781 Clostridium acetobutylicum ATCC824 section 269 of 356 of the complete genome.,1,12,7704,7588,134.00,AAUGAUCUUCAGGGCAGGGUGAAAUUCCCUACCGGCGGUAUAGCCCGCGAGCCUUUUUAGGUAUGAUCCGGUUUGAUUCCGGAGCCGACAGUAAAGUCUGGAUGAAAGAAGAUAUAU,AE007781.1/7704-7588,7704-7588,0,116,AE007781.1/7704-7588
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22849,AE008109.1,1,sp|AE008109.1|AE008109 Agrobacterium tumefaciens str. C58 circular chromosome; section 167 of 254 of the complete sequence.,0,13,1004,1154,134.85,GGUUGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUCGGGAUUUGUCCCGGAGCCCGCGAGCGCUUCCGGUCUCCAAAGCCGGAAGGUCAGCAGAUCCGGUGAGAGGCCGGAGCCGACGGUAUAGUCCGGAUGGAAGAGGACAAGG,AE009143.1/6999-7149 AE008109.1/1004-1154,1004-1154,0,150,AE008109.1/1004-1154
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,23138,AE008399.1,1,sp|AE008399.1|AE008399 Streptococcus pneumoniae R6 section 15 of 184 of the complete genome.,1,14,8878,8764,129.61,AACUAUCUUCAGGGCAGGGUGCAAUUCCCUACCGGUGGUAUAGCCCACGAGCCGAAAGGCAUGAUUUGGUGAAAUUCCAAAGCCGACAGUAUAGUCUGGAUGAAAGAAGAUAAAA,AE008399.1/8878-8764,8878-8764,0,114,AE008399.1/8878-8764
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,23162,AE008423.1,1,sp|AE008423.1|AE008423 Streptococcus pneumoniae R6 section 39 of 184 of the complete genome.,0,15,5133,5367,122.36,AAGAGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUUUAACUAGGAAAUGAUCUUUUCCUUUUAUACUUUGUUGACAAGCUUUGCCUAACCAGAAGUUAUGCCUACAGCUUGUCGCCUAGUCUAAAAGAAAAAUCUCUAUUUCCUUCUCUUUAAAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAUAGUCUGGAUGGGAGAAGACGAAA,AE008423.1/5133-5367,5133-5367,0,234,AE008423.1/5133-5367
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,23572,AE008847.1,1,sp|AE008847.1|AE008847 Salmonella typhimurium LT2; section 151 of 220 of the complete genome.,1,16,1073,875,133.16,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAGCGAUGUUUAACGCAUUUCUCAUCACGGCGCGCCGUGACGGAACGCGGAGAGCAGGUUGAAAGCCCGCGAGCGCUUUUUGCCAUAGCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAAAGUCCGGAUGGGAGAGGGUAACG,AE008847.1/1073-875,1073-875,0,198,AE008847.1/1073-875
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,23864,AE009143.1,1,sp|AE009143.1|AE009143 Agrobacterium tumefaciens strain C58 circular chromosome; section 169 of 256 of the complete sequence.,0,17,6999,7149,134.85,GGUUGUUCUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUCGGGAUUUGUCCCGGAGCCCGCGAGCGCUUCCGGUCUCCAAAGCCGGAAGGUCAGCAGAUCCGGUGAGAGGCCGGAGCCGACGGUAUAGUCCGGAUGGAAGAGGACAAGG,AE009143.1/6999-7149 AE008109.1/1004-1154,6999-7149,0,150,AE009143.1/6999-7149
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,24412,AE009695.1,1,sp|AE009695.1|AE009695 Brucella melitensis 16M chromosome II; section 57 of 107 of the complete sequence.,1,18,6814,6651,132.79,GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUGAAAAGCAAUUUUCAAGCCCGCGAGCGCCUGAAAUGGAAGCCGAUUCGCAUGCCAUUUCAGGGUCAGCAGAUCCGGUGAGAUGCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAGCGAAU,Z46864.1/50-213 AE009695.1/6814-6651 AE014565.1/1997-2160,6814-6651,0,163,AE009695.1/6814-6651
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,24694,AE009983.1,1,sp|AE009983.1|AE009983 Streptococcus pyogenes strain MGAS8232; section 31 of 173 of the complete genome.,0,19,9380,9503,127.35,AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG,AE006500.1/7207-7330 AE009983.1/9380-9503,9380-9503,0,123,AE009983.1/9380-9503
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,25167,AE010459.1,1,sp|AE010459.1|AE010459 Fusobacterium nucleatum subsp. nucleatum ATCC 25586; section 1 of 197 of the complete genome.,0,20,1615,1730,119.42,AAUAAUCUUCGGGGCAGGGUGAAAUUCCCGACCGGUGGUAUAGUCCACGAAAGUAUUUGCUUUGAUUUGGUGAAAUUCCAAAACCGACAGUAGAGUCUGGAUGAGAGAAGAAAAGA,AE010459.1/1615-1730,9470-9585 1615-1730,0,115,AE010459.1/1615-1730
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,25167,AE010459.1,1,sp|AE010459.1|AE010459 Fusobacterium nucleatum subsp. nucleatum ATCC 25586; section 1 of 197 of the complete genome.,0,21,9470,9585,118.26,UAAAGUCUUCAGGGCAGGGUGAAAUUCCCGACCGGUGGUACAGUCCACGAAAGCAUUUGCUUUGAUUUGGUGAAAUUCCAAAACCGACAGUAGAGUCUGGAUGGGAGAAGAAUUAG,AE010459.1/9470-9585,9470-9585 1615-1730,0,115,AE010459.1/9470-9585
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,26412,AE011704.1,1,sp|AE011704.1|AE011704 Xanthomonas axonopodis pv. citri str. 306;  section 82 of 469 of the complete genome.,0,22,9343,9521,122.22,GAACGUCUUCAGGGCGGGGUGCGAUUCCCCACCGGCGGUAGGCAUGCGCAAGCAUGCGAGCCCGCGAGCGCUUGCACUCCAGGGUUGAGCGGACUAACGCCAAACCCCUGCUGCGCAAGGUCAGCAGAUCCGGUCCGAUGCCGGAGCCGACGGUAUAGUCCGGAUGAAAGAAGACGGCC,AE011704.1/9343-9521,9343-9521,0,178,AE011704.1/9343-9521
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,26875,AE012168.1,1,sp|AE012168.1|AE012168 Xanthomonas campestris pv. campestris str. ATCC 33913;  section 76 of 460 of the complete genome.,0,23,3092,3260,129.38,GAACGUCUUCAGGGCGGGGUGCGAUUCCCCACCGGCGGUAUGCAUGCGCAAGCGUGUGAGCCCGCGAGCGCUUCGCUGCCGAUCUCUCGCUGAGAGCACGGCGGUGAAGGUCAGCAGAUCCGGUGCGAUGCCGGGGCCGACGGUAUAGUCCGGAUGAAAGAAGACGGCC,AE012168.1/3092-3260,3092-3260,0,168,AE012168.1/3092-3260
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,27513,AE013024.1,1,sp|AE013024.1|AE013024 Thermoanaerobacter tengcongensis strain MB4T; section 51 of 244 of the complete genome.,0,24,1,102,98.48,CGGGGCAGGGUGGAAUUCCCGACCGGCAGUGAAAGCCUGCGAGCCGCAUAUGCGGUUGACUCGGUGAAAUUCCGAGGCCGACGGUAAAAGUCCGGAUGGGAG,AE013024.1/1-102,1-102,0,101,AE013024.1/1-102
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28440,AE013955.1,1,sp|AE013955.1|AE013955 Yersinia pestis KIM section 355 of 415 of the complete genome.,1,25,2525,2336,133.96,GCUUAUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAAUUGUAUUGCGACGAUAUAGUCACGUCGGUGGUGCAAAAGCCCGCGAGCGCUCAUAUUGUUUCUCUUAUCCAAGAGAGCAAGGUAGAGGUCAGCAGACCCGGUGUAAUUCCGGGGCCGACGGUUAUAGUCCGGAUGGGAGAGAGUAACG,AE013955.1/2525-2336 AJ414144.1/14671-14860,2525-2336,0,189,AE013955.1/2525-2336
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28566,AE014142.1,1,sp|AE014142.1|AE014142 Streptococcus pyogenes MGAS315; section 7 of 37 of the complete genome.,0,26,1906,2030,127.25,AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG,AP005146.1/16628-16504 AE014142.1/1906-2030,1906-2030,0,124,AE014142.1/1906-2030
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28631,AE014225.1,1,sp|AE014225.1|AE014225 Streptococcus agalactiae 2603V/R section 35 of 100 of the complete genome.,0,27,13063,13177,114.32,GAAUUUCUUCGGGGUCAGGUGAAAAUCCUAACCGGCGGUAUAGUCCGCGAGCUUUCGAGCAUGAACUGGUGUGAUUCCAGUACCGACAGUAAAGUCUGGAUGAGAGAAGAAUUCA,AE014225.1/13063-13177,13063-13177,0,114,AE014225.1/13063-13177
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28662,AE014256.1,1,sp|AE014256.1|AE014256 Streptococcus agalactiae 2603V/R section 66 of 100 of the complete genome.,1,28,5466,5321,132.94,AGGUGUCUUCAGGGCAGGGUGUAAUUCCCGACCGGCGGUAAUCGCUUCCAACUUAUUUGUCAGUUGUGAAGCAUCAGUCCGCGAGCGAAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAAAGUCUGGAUGGGAGAAGACAAAG,AL766851.1/11027-10882 AE014256.1/5466-5321,5466-5321,0,145,AE014256.1/5466-5321
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28947,AE014565.1,1,sp|AE014565.1|AE014565 Brucella suis 1330 chromosome II section 61 of 108 of the complete genome.,0,29,1997,2160,132.79,GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUGAAAAGCAAUUUUCAAGCCCGCGAGCGCCUGAAAUGGAAGCCGAUUCGCAUGCCAUUUCAGGGUCAGCAGAUCCGGUGAGAUGCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAGCGAAU,Z46864.1/50-213 AE009695.1/6814-6651 AE014565.1/1997-2160,1997-2160,0,163,AE014565.1/1997-2160
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28999,AE014618.1,1,sp|AE014618.1|AE014618 Bifidobacterium longum NCC2705 section 5 of 202 of the complete genome.,1,30,8796,8645,115.27,UGUCAGUUUCAGGGAAGGUGCAAUUCCUUACUGGCGGUAACCUGCACCCCGGGUUUCAUAACGGGGAUGGCAGGAAGCCCGCGACCCGCGCAAGCGGCUGAUCCGGUGAGAUUCCGGAGCCAACGGUAUAGUCCGGAUGGAAGAAACGAGGG,AE014618.1/8796-8645,8796-8645,0,151,AE014618.1/8796-8645
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,29343,AE014999.1,1,sp|AE014999.1|AE014999 Streptococcus mutans UA159 section 147 of 185 of the complete genome.,1,31,4492,4279,122.96,AAGUGUCUUCAGGGCAGGGUGAGAUUCCCGACCGGCGGUGACAAAGGCGAUGAUUUUUCAACGAGAUUAGAUAGUAAGUCGAAGAUGAUAUUAGACUAUAUCAAGAUGAGCUAAUGAUGCGUCAGAGAAAAGAUUCCUUUUGAAGUCCGCGAGCGCAAGCUGAUGUGGUGAAAUUCCACAACCGACAGUAAAGUCUGGAUGGGAGAAGACUGAG,AE014999.1/4492-4279,4492-4279,0,213,AE014999.1/4492-4279
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,29664,AE015320.1,1,sp|AE015320.1|AE015320 Shigella flexneri 2a str. 301 section 283 of 412 of the complete genome.,1,32,2277,2129,137.50,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,AE000386.1/2256-2108 AE005534.1/2257-2109 AE015320.1/2277-2129 AP002564.1/19513-19365 AE016988.1/252559-252411 U28377.1/139106-138958,2277-2129,0,148,AE015320.1/2277-2129
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,29807,AE015465.1,1,sp|AE015465.1|AE015465 Shewanella oneidensis MR-1 section 14 of 457 of the complete genome.,1,33,227,1,53.20,UUCUCAGGGCGGGGUGAAACUCCCCACCGGCGGUAAAUAGUGAGGUAAAAGAGAUUUUCCCACGCUAAAGCCCGCGAGCGCCCGAACGCAAUUUCGGGGUCAGCAGAUCUGGUGCCCUAGCAUGUCUCGCCAUGGUUAACGCCAAACGAGACCGCGCUAUUAUUCCAGAGCCGACGGUAAUGGACUGUUUGCCACUAGCGACAGUACUGAGUCCGGAUGGAAGAGAA,AE015465.1/227-1,227-1,0,226,AE015465.1/227-1
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30274,AE015937.1,1,sp|AE015937.1|AE015937 Clostridium tetani E88; section 2 of 10 of the complete genome.,0,34,18444,18558,128.16,AAAUAUCUUCAGGGCGGGGUGUAAUUCCCCACCGGCGGUAUAGCCCGCGAGCCGCAAGGCAUGAUUCGGUGUAACUCCGAAGCCGACAGUAAAGUCUGGAUGAAAGAAGGUAUAA,AE015937.1/18444-18558,18444-18558,0,114,AE015937.1/18444-18558
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30275,AE015938.1,1,sp|AE015938.1|AE015938 Clostridium tetani E88; section 3 of 10 of the complete genome.,0,35,84701,84815,114.83,UACAUCCUUCAGGGUUUGGUGAGAUUCCAUACCGGUGGUAAAGCCCACGAGCCGCAAGGCAGAUCUGGUGAAAUUCCAGGGCCGACAGUUAAAGUCUGGAUGAAAGAAGGAAAUU,AE015938.1/84701-84815,84701-84815,0,114,AE015938.1/84701-84815
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30287,AE016748.1,1,sp|AE016748.1|AE016748 Staphylococcus epidermidis ATCC 12228; section 5 of 9 of the complete genome.,1,36,289216,289078,125.94,UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAUUU,AE016748.1/289216-289078,6622-6487 289216-289078,0,138,AE016748.1/289216-289078
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30287,AE016748.1,1,sp|AE016748.1|AE016748 Staphylococcus epidermidis ATCC 12228; section 5 of 9 of the complete genome.,1,37,6622,6487,120.28,AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAUCUAAGCCUGCGACGACAACGUAUUAAUUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AE016748.1/6622-6487 AF269888.1/483-348 AF269712.1/1300-1435,6622-6487 289216-289078,0,135,AE016748.1/6622-6487
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30304,AE016767.1,1,sp|AE016767.1|AE016767 Escherichia coli CFT073 section 13 of 18 of the complete genome.,1,38,117,1,54.55,CAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAG,AE016767.1/117-1,117-1,0,116,AE016767.1/117-1
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30312,AE016776.1,1,sp|AE016776.1|AE016776 Pseudomonas putida KT2440 section 3 of 21 of the complete genome.,1,39,12904,12763,123.02,GUCGGUCUUCAGGGCGGGGUGUAAGUCCCCACCGGCGGUAAAUCGAAAGAUGAGCCCGCGAGCGCCCCGACCAUGUCGGGGGUCAGCAGAUCUGGUGCAACUCCAGAGCCGACGGUCAUAGUCCGGAUGAAAGAAGGCGUCA,AE016776.1/12904-12763,12904-12763,0,141,AE016776.1/12904-12763
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30347,AE016813.1,1,sp|AE016813.1|AE016813 Vibrio vulnificus CMCP6 chromosome II section 6 of 6 of the complete sequence.,1,40,63466,63326,135.21,UUUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAUACCGAAUGAGGUGAGCCCGCGAGCGCUCGAUUCGUCGAGGUCAGCAGAUCUGGUGAGAGGCCAGAGCCGACGGUUAUAGUCCGGAUGAGAGAGAAUGAAA,AE016813.1/63466-63326,63466-63326,0,140,AE016813.1/63466-63326
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30362,AE016844.1,1,sp|AE016844.1|AE016844 Salmonella enterica subsp. enterica serovar Typhi Ty2; section 11 of 16 of the complete genome.,1,41,196657,196459,133.16,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAGCGAUGUUUAACGCAUUUCUCAUCACGGUGCGCCGUGACGGAACGCGGAGAGCAGGUUGAAAGCCCGCGAGCGCUUUUUGCCAUAGCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAAAGUCCGGAUGGGAGAGGGUAACG,AL627278.1/10311-10113 AE016844.1/196657-196459,196657-196459,0,198,AE016844.1/196657-196459
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30379,AE016862.1,1,sp|AE016862.1|AE016862 Pseudomonas syringae pv. tomato str. DC3000 section 7 of 21 of the complete genome.,1,42,116414,116248,122.79,UAACGUUCUCAGGGCGGGGUGCAACUCCCCACCGGCGGUAAUGGCGCGCAAUGCGUCUAGCCCGCGAGCGCUUGGGGGUUUCAGCUUUGGCUGACGACCUGCAAGGUCAGCAGACCCGGUGUGAUUCCGGGGCCGACGGUCAUAGUCCGGAUGAAGAGAGAGCGGGA,AE016862.1/116414-116248,116414-116248,0,166,AE016862.1/116414-116248
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30420,AE016951.1,1,sp|AE016951.1|AE016951 Enterococcus faecalis V583; section 5 of 11 of the complete genome.,0,43,265043,265162,102.32,GUUCGUCUUCAGGGGCAGGGUGUAAUUCCCGACCGGUGGUUAUAGUCCACGACUCGUUUUUAACGAUUGAAUUGGUGUAAUUCCAAUACCGACAGUAUAGUCUGGAUAAAGAAGAUAGGG,AE016951.1/265043-265162,265043-265162,0,119,AE016951.1/265043-265162
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30428,AE016961.1,1,sp|AE016961.1|AE016961 Coxiella burnetii strain RSA 493; section 2 of 7 of the complete genome.,0,44,292346,292482,118.77,AAGCGCCUUCAGGGCGGGGUGGAAGUCCCCACCGGCGGUAAGUUUCUUUGAAAUAAGCCCGCGAGUCUCUAUUUUAAGAGACAGAUCUGGUUAAAUUCCAGAGCCGACGGUCAGAGUCCGGAUGAGAGAAGGUAUGC,AE016961.1/292346-292482,292346-292482,0,136,AE016961.1/292346-292482
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30448,AE016988.1,1,sp|AE016988.1|AE016988 Shigella flexneri 2a str. 2457T section 11 of 16 of the complete genome.,1,45,252559,252411,137.50,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,AE000386.1/2256-2108 AE005534.1/2257-2109 AE015320.1/2277-2129 AP002564.1/19513-19365 AE016988.1/252559-252411 U28377.1/139106-138958,252559-252411,0,148,AE016988.1/252559-252411
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30462,AE017002.1,1,sp|AE017002.1|AE017002 Bacillus cereus ATCC 14579 section 5 of 18 of the complete genome.,0,46,225425,225564,129.86,GUCUAUCUUCGGGGCAGGGUGAAAAUCCCGACCGGCGGUGAUGAACUAUUUAUGAUUUUGUUCUAAGCCCGCGAGCCGUUAAGGCAGGAUUUGGUGUGAUUCCAAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AE017028.1/261819-261958 AE017002.1/225425-225564,225425-225564,0,139,AE017002.1/225425-225564
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30471,AE017011.1,1,sp|AE017011.1|AE017011 Bacillus cereus ATCC 14579 section 14 of 18 of the complete genome.,0,47,142450,142593,121.33,AGCAUCCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAUGAAGUGAAAACUUCUAAGUCCGUGACCCGUUUUCAACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUAUAGUCUGGAUGGGAGAAGGAUAUG,AE017011.1/142450-142593,142450-142593,0,143,AE017011.1/142450-142593
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30480,AE017028.1,1,sp|AE017028.1|AE017028 Bacillus anthracis str. Ames section 5 of 18 of the complete genome.,0,48,261819,261958,129.86,GUCUAUCUUCGGGGCAGGGUGAAAAUCCCGACCGGCGGUGAUGAACUAUUUAUGAUUUUGUUCUAAGCCCGCGAGCCGUUAAGGCAGGAUUUGGUGUGAUUCCAAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AE017028.1/261819-261958 AE017002.1/225425-225564,261819-261958,0,139,AE017028.1/261819-261958
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30489,AE017037.1,1,sp|AE017037.1|AE017037 Bacillus anthracis str. Ames section 14 of 18 of the complete genome.,0,49,154101,154244,121.33,AGCAUCCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAUGAAGUGCAAACUUCUAAGUCCGUGACCCGUUUUCAACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUAUAGUCUGGAUGGGAGAAGGAUAUG,AE017037.1/154101-154244,154101-154244,0,143,AE017037.1/154101-154244
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30503,AE017154.1,1,sp|AE017154.1|AE017154 Haemophilus ducreyi strain 35000HP section 4 of 6 of the complete genome.,0,50,36946,37079,124.09,UUUAAUCUUCAGGGCAGGGUGAAAUUCCCGAUCGGUGGUAAAGUCCGCGAGCCGAACUUCGAUUAACAUCAAGUUUAGCAGGAACUAGUGAAAUUCUAGUACCGACAGUAUAGUCUGGAUGGAAGAAGAGCAGA,AE017154.1/36946-37079,36946-37079,0,133,AE017154.1/36946-37079
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,9636,AF269345.1,1,sp|AF269345.1|AF269345 Staphylococcus epidermidis strain SR1 clone step.1002d07 genomic sequence.,1,51,3001,2863,126.92,UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAGUU,AF269926.1/559-421 AF269345.1/3001-2863 AF269646.1/2218-2080,3001-2863,0,138,AF269345.1/3001-2863
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,9937,AF269646.1,1,sp|AF269646.1|AF269646 Staphylococcus epidermidis strain SR1 clone step.1015d10 genomic sequence.,1,52,2218,2080,126.92,UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAGUU,AF269926.1/559-421 AF269345.1/3001-2863 AF269646.1/2218-2080,2218-2080,0,138,AF269646.1/2218-2080
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,10001,AF269712.1,1,sp|AF269712.1|AF269712 Staphylococcus epidermidis strain SR1 clone step.1018d10 genomic sequence.,0,53,1300,1435,120.28,AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAUCUAAGCCUGCGACGACAACGUAUUAAUUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AE016748.1/6622-6487 AF269888.1/483-348 AF269712.1/1300-1435,1300-1435,0,135,AF269712.1/1300-1435
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,10177,AF269888.1,1,sp|AF269888.1|AF269888 Staphylococcus epidermidis strain SR1 clone step.1028e12 genomic sequence.,1,54,483,348,120.28,AUUCAUCUUCGGGGUAGGGUGUAAUUCCCAACCGGCAGUAAUCUAAGCCUGCGACGACAACGUAUUAAUUUUUGCUUUGUCUUGAUUCAGUGAGAGUCUGAAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AE016748.1/6622-6487 AF269888.1/483-348 AF269712.1/1300-1435,483-348,0,135,AF269888.1/483-348
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,10215,AF269926.1,1,sp|AF269926.1|AF269926 Staphylococcus epidermidis strain SR1 clone step.1032d02 genomic sequence.,1,55,559,421,126.92,UAUUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUUGAGCCUGCGACCCACUAAUAUUGUUUUUGAUGUUAGUGGCUGAUCUAGUGUGAAUCUAGAGCCGACAGUUAGAGUCUGGAUGGGAGAAAGAAGUU,AF269926.1/559-421 AF269345.1/3001-2863 AF269646.1/2218-2080,559-421,0,138,AF269926.1/559-421
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,332,AJ414144.1,1,sp|AJ414144.1|AJ414144 Yersinia pestis strain CO92 complete genome; segment 4/20,0,56,14671,14860,133.96,GCUUAUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAAUUGUAUUGCGACGAUAUAGUCACGUCGGUGGUGCAAAAGCCCGCGAGCGCUCAUAUUGUUUCUCUUAUCCAAGAGAGCAAGGUAGAGGUCAGCAGACCCGGUGUAAUUCCGGGGCCGACGGUUAUAGUCCGGAUGGGAGAGAGUAACG,AE013955.1/2525-2336 AJ414144.1/14671-14860,14671-14860,0,189,AJ414144.1/14671-14860
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,415,AL591981.1,1,sp|AL591981.1|AL591981 Listeria monocytogenes strain EGD; complete genome; segment 9/12,1,57,267609,267487,126.32,GUUCAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGUGGUUAAAGUCCACGAUCUGCUUUUUUAGCAGUUGACUCUGGUGUAAUUCCAGGACCGACAGUAUAGUCUGGAUGGGAGAAGAUGUUG,AL591981.1/267609-267487,267609-267487,0,122,AL591981.1/267609-267487
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,426,AL596170.1,1,sp|AL596170.1|AL596170 Listeria innocua Clip11262 complete genome; segment 8/12,1,58,284996,284874,125.19,GUUCAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGUGGUUAAAGUCCACGAUCUGCUUUCUUAGCAGUUGACUCUGGUGUAAUUCCAGGACCGACAGUAUAGUCUGGAUGGGAGAAGAUGUUG,AL596170.1/284996-284874,284996-284874,0,122,AL596170.1/284996-284874
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,444,AL627278.1,1,sp|AL627278.1|AL627278 Salmonella enterica serovar Typhi (Salmonella typhi) strain CT18; complete chromosome; segment 14/20,1,59,10311,10113,133.16,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAGCGAUGUUUAACGCAUUUCUCAUCACGGUGCGCCGUGACGGAACGCGGAGAGCAGGUUGAAAGCCCGCGAGCGCUUUUUGCCAUAGCGAAAAGGUCAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAAAGUCCGGAUGGGAGAGGGUAACG,AL627278.1/10311-10113 AE016844.1/196657-196459,10311-10113,0,198,AL627278.1/10311-10113
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,477,AL646083.1,1,sp|AL646083.1|AL646083 Ralstonia solanacearum GMI1000 megaplasmid; complete sequence; segment 8/11,1,60,100911,100755,133.44,GUACGUCUUCAGGGCGGGGUGGAAUUCCCCACCGGCGGUAUGCGGGCCAUCGGUCUGCGAGCCCGCGAGCGCCCGGCAUGCGCAGCGCAUGCCGGGGUCAGCAGAUCCGGUGAGAUGCCGGGGCCGACGGUCAGAGUCCGGAUGGAAGAAGAUGUGC,AL646083.1/100911-100755,100911-100755,0,156,AL646083.1/100911-100755
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,485,AL935256.1,1,sp|AL935256.1|AL935256 Lactobacillus plantarum strain WCFS1 complete genome; segment 5/11,0,61,62753,62883,118.92,CGAUUUCUUCGGGGCAGGGUGCAAUUCCCGACCGACGGUAACAACGUAAGUUGAAGUCCGUGACCCGCGUGAGCGGUGGACCCAGUGCAAGUCUGGGACCGACAGUAUAGUCUGGAUGGGAGAAGAAAAUU,AL935256.1/62753-62883,62753-62883,0,130,AL935256.1/62753-62883
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,486,AL935257.1,1,sp|AL935257.1|AL935257 Lactobacillus plantarum strain WCFS1 complete genome; segment 6/11,1,62,151025,150904,96.43,GUUCAUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUAAUAACCCGCGACCUAUGCGUGUGCAUAGUGAUUUGGUGCAAUUCCAAAGUCGACAGUAAAGUCUGGUAUAAAGAAGAUCGAG,AL935257.1/151025-150904,151025-150904,0,121,AL935257.1/151025-150904
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,931,AP001512.1,1,sp|AP001512.1|AP001512 Bacillus halodurans genomic DNA; section 6/14.,0,63,135315,135462,115.74,UUUAUCCUUCGGGGCUGGGUGGAAAUCCCGACCGGCGGUGAUGAAGCGAAUGCUUCUUAGUCCGUGACCCGGUUGCUGAUAUCAGUAAGCGGUGGACCUGGUGAAAAUCCGGGACCGACAGUGAAAGUCUGGAUGGGAGAAGGAAACG,AP001512.1/135315-135462,135315-135462,0,147,AP001512.1/135315-135462
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,960,AP002564.1,1,sp|AP002564.1|AP002564 Escherichia coli O157:H7 DNA; complete genome; section 15/20.,1,64,19513,19365,137.50,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,AE000386.1/2256-2108 AE005534.1/2257-2109 AE015320.1/2277-2129 AP002564.1/19513-19365 AE016988.1/252559-252411 U28377.1/139106-138958,19513-19365,0,148,AP002564.1/19513-19365
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,983,AP003011.2,1,sp|AP003011.2|AP003011 Mesorhizobium loti DNA; complete genome; section 18/21.,1,65,168184,168036,139.26,UAAAGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAGGGCCUCAAACCCAAGCCCGCGAGCGCUUUCCAAGACAAUUGGAAAGGUCAGCAGAUCCGGUGUGAUUCCGGAGCCGACGGUUAGAGUCCGGAUGAAAGAGGACGAAA,AP003011.2/168184-168036,168184-168036,0,148,AP003011.2/168184-168036
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,996,AP003134.2,1,sp|AP003134.2|AP003134 Staphylococcus aureus subsp. aureus N315 genomic DNA; complete genome; section 6/10.,1,66,24232,24098,131.26,AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAGUAUGUAUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AP003362.2/211263-211129 AP003134.2/24232-24098,24232-24098,0,134,AP003134.2/24232-24098
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,997,AP003135.2,1,sp|AP003135.2|AP003135 Staphylococcus aureus subsp. aureus N315 genomic DNA; complete genome; section 7/10.,1,67,27380,27245,132.94,UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAAUAUGUUUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUUAAAGUCUGGAUGGGAGAAAGAAUGU,AP003363.2/170441-170306 AP003135.2/27380-27245 AP004828.1/41687-41552,27380-27245,0,135,AP003135.2/27380-27245
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1004,AP003187.2,1,sp|AP003187.2|AP003187 Clostridium perfringens str. 13 DNA; complete genome; section 3/10.,0,68,100445,100560,138.58,AAAAUUCUUCAGGGCAGGGUGAAAUUCCCUACCGGCGGUAAAGCCCGCGAGCUAGUUUAGCAUGAUUCGGUGAAAUUCCGAGGCCGACAGUAAAGUCUGGAUGAAAGAAGAAUAUC,AP003187.2/100445-100560,100445-100560,0,115,AP003187.2/100445-100560
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1010,AP003193.2,1,sp|AP003193.2|AP003193 Clostridium perfringens str. 13 DNA; complete genome; section 9/10.,1,69,79921,79804,132.69,AAAAGUCUUCAGGGCGGGGUGUGAGUCCCCACCGGCGGUAAAGCCCGCGAGCUAGUUUUUAGCAUGAUUCGGUGAAAUUCCGAGGCCGACAGUAUAGUCUGGAUGAAAGAAGAUGAGU,AP003193.2/79921-79804,79921-79804,0,117,AP003193.2/79921-79804
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1016,AP003362.2,1,sp|AP003362.2|AP003362 Staphylococcus aureus subsp. aureus Mu50 genomic DNA; complete sequence; section 5/9.,1,70,211263,211129,131.26,AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAGUAUGUAUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AP003362.2/211263-211129 AP003134.2/24232-24098,211263-211129,0,134,AP003362.2/211263-211129
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1017,AP003363.2,1,sp|AP003363.2|AP003363 Staphylococcus aureus subsp. aureus Mu50 genomic DNA; complete sequence; section 6/9.,1,71,170441,170306,132.94,UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAAUAUGUUUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUUAAAGUCUGGAUGGGAGAAAGAAUGU,AP003363.2/170441-170306 AP003135.2/27380-27245 AP004828.1/41687-41552,170441-170306,0,135,AP003363.2/170441-170306
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1062,AP004600.1,1,sp|AP004600.1|AP004600 Oceanobacillus iheyensis HTE831 genomic DNA; section 8/13.,1,72,281754,281631,134.74,UCCAAUCUUCGGGGCAGGGUGCAAUUCCCGACCGGCGGUAAAGUCCGCGAGCUGCAUACAUAUUGUGGUUGAUCUGGUUAAAUUCCAGUACCGACAGUUAUAGUCUGGAUGGGAGAAGAUGUCG,AP004600.1/281754-281631,281754-281631,0,123,AP004600.1/281754-281631
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1066,AP004604.1,1,sp|AP004604.1|AP004604 Oceanobacillus iheyensis HTE831 genomic DNA; section 12/13.,1,73,48939,48801,128.42,UGUAUUCUUCGGGGCAGGGUGUAAUUCCCGACCGGCGGUGACAAGUCAUCAGAACUUGAAGUCCGUGACCCGCUUUUAUGCGGUGGAUCUAGUGAGAAUCUAGAGCCGACAGUAAUAGUCUGGAUGGGAGAAGAAUAGC,AP004604.1/48939-48801,48939-48801,0,138,AP004604.1/48939-48801
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1073,AP004827.1,1,sp|AP004827.1|AP004827 Staphylococcus aureus subsp. aureus MW2 DNA; complete genome; strain:MW2; section 6/10.,1,74,34791,34657,131.26,AUUCAUCUUCGGGGUCGGGUGUAAUUCCCAACCGGCAGUAAAUUAAGCCUGCGACCUGCUAGUAUGUAUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUAUAGUCUGGAUGGGAGAAGAUGGAG,AP004827.1/34791-34657,34791-34657,0,134,AP004827.1/34791-34657
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1074,AP004828.1,1,sp|AP004828.1|AP004828 Staphylococcus aureus subsp. aureus MW2 DNA; complete genome; strain:MW2; section 7/10.,1,75,41687,41552,132.94,UAAUUCUUUCGGGGCAGGGUGAAAUUCCCAACCGGCAGUAAAUAAAGCCUGCGACCUGCUAAUAUGUUUCAUAUUAGUGGCUGAUCUAGUGAGAUUCUAGAGCCGACAGUUAAAGUCUGGAUGGGAGAAAGAAUGU,AP003363.2/170441-170306 AP003135.2/27380-27245 AP004828.1/41687-41552,41687-41552,0,135,AP004828.1/41687-41552
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1106,AP005048.1,1,sp|AP005048.1|AP005048 Streptomyces avermitilis genomic DNA; complete genome; section 28/30.,0,76,135331,135458,100.46,CAGCGCACUCCGGGGUCGGUGAAAGUCCGAACCGGCGGUUAUAGUCCGCGACCCGCUCGCCUCGGCGAUCGGUUGACCAGGUGGAAUUCCUGGACCGACGGUUAAAGUCCGGAUGGGAGGCAGUGCGC,AP005048.1/135331-135458,135331-135458,0,127,AP005048.1/135331-135458
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1124,AP005088.1,1,sp|AP005088.1|AP005088 Vibrio parahaemolyticus DNA; chromosome 2; complete sequence; 5/6.,0,77,121584,121724,138.23,AAUUGUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAUACUUUUUCAAGUGAGCCCGCGAGCGCUCGAUUCGUCGAGGUCAGCAGAUCUGGUGAGAUGCCAGAGCCGACGGUUAUAGUCCGGAUGAAAGAGAAUAAGA,AP005088.1/121584-121724,121584-121724,0,140,AP005088.1/121584-121724
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1131,AP005146.1,1,sp|AP005146.1|AP005146 Streptococcus pyogenes SSI-1 DNA; complete genome; section 6/6.,1,78,16628,16504,127.25,AAGUGUCUUCAGGGCAGGGUGUGAUUCCCGACCGGCGGUGACUAGGUAACUAGAAGUCCGCGAGCGCAAGCUGAUGUGGUGUAACUCCACAACCGACAGUAUAGUCUGGAUGAGAGAAGACCGGG,AP005146.1/16628-16504 AE014142.1/1906-2030,16628-16504,0,124,AP005146.1/16628-16504
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1133,AP005214.1,1,sp|AP005214.1|AP005214 Corynebacterium efficiens YS-314 DNA; complete genome; section 1/11.,1,79,86557,86391,134.52,GGGUGUUCUCAGGGCGGGGUGUAAUUCCCCACCGGCGGUGAGAGUGUCCUCCAGAUGGGGAGGCUCAAGCCCGCGAGCGCCACCGUAUUCCGCUUAUGGAGGGUGGGUCAGCAGAUCCGGUGUGAUUCCGGAGCCGACGGUCAUAGUCCGGAUGGAAGAGAACCGUG,AP005214.1/86557-86391,86557-86391,0,166,AP005214.1/86557-86391
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1146,AP005274.1,1,sp|AP005274.1|AP005274 Corynebacterium glutamicum ATCC 13032 DNA; complete genome; section 1/10.,1,80,66442,66279,132.97,UUUUGUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAGACGAAUCAUCAGAUAUGACUAGUUGAGCCCGCGAGCGCCACCAACUAGCAAUGGUUUGUGGGUCAGCAGAUCCGGUUAAAUUCCGGAGCCGACGGUCAUAGUCCGGAUGCAAGAGAACCGUG,AP005274.1/66442-66279,66442-66279,0,163,AP005274.1/66442-66279
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1193,AP005962.1,1,sp|AP005962.1|AP005962 Bradyrhizobium japonicum USDA 110 DNA; complete genome; section 28/31.,1,81,90299,90125,128.81,AUAAGUUCUCAGGGCGGGGUGAAAGUCCCCACCGGCGGUAAGGGCCGAAAGGCCUAAGCCCGCGAGCGCCUUCUCCUUGAUAGGGAUUCCCUCGGGGACCCCUCGGAGGGAAGGGUCAGCAGAUUCGGUGCAACUCCGAAGCCGACGGUUAAAGUCCGGAUGAAAGAGAACGGUC,AP005962.1/90299-90125,90299-90125,0,174,AP005962.1/90299-90125
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1214,U27202.1,1,sp|U27202.1|AP27202 Actinobacillus pleuropneumoniae riboflavin biosynthesis operon; riboflavin-specific deaminase (ribG); riboflavin synthase alpha subunit (ribB); bifunctional GTP cyclohydrase II/3;4-dihydroxy-2-butanone-4-phosphate synthase (ribA); and riboflavin synthase beta subunit (ribH) genes; complete cds.,0,82,210,335,135.63,AAUAAUCUUCAGGGCAGGGUGAAAUUCCCGAUCGGCGGUAAAGUCCGCGAGCCGAACGAAAAAGGUUUGGCAGGAACCGGUGAGAUUCCGGUACCGACAGUAUAGUCUGGAUGGAAGAAGAUGAAA,U27202.1/210-335,210-335,0,125,U27202.1/210-335
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,28069,AY246427.1,1,sp|AY246427.1|AY246427 Rhizobium leguminosarum bv. viciae Hurl (hurl) gene; complete cds.,0,83,2402,2556,125.76,UUCUGUUCUCAGGGCGGGGUGAAACUCCCCACCGGCGGUAAGAGUUUCGGCUCGAGCCCGCGAGCGCCUUCCCUCGUGUCCAAGCGGGGGAAGGGUCAACAGAUCCGGUGCGAUUCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAAUGAGU,AY246427.1/2402-2556,2402-2556,0,154,AY246427.1/2402-2556
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,36138,AJ010128.1,1,sp|AJ010128.1|BAJ10128 Bacillus cereus bc297a; alkD genes and partial glyS gene,1,84,362,219,119.31,CAGCAUCUUCGGGGUCGGGUGAAAUUCCCAACCGGCGGUGAUGAAGUGCAAACUUCUAAGUCCGUGACCCGUUUUCAACUCGAAAACGGUGGAUCUAGUGAAACUCUAGGGCCGACAGUAUAGUCUGGAUGGGAGAAGGAUAUG,AJ010128.1/362-219,362-219,0,143,AJ010128.1/362-219
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,36230,Z46864.1,1,sp|Z46864.1|BAORFP17 B.abortus gene for open reading frame.,0,85,50,213,132.79,GCUUGUUCUCGGGGCGGGGUGAAACUCCCCACCGGCGGUAUGAAAAGCAAUUUUCAAGCCCGCGAGCGCCUGAAAUGGAAGCCGAUUCGCAUGCCAUUUCAGGGUCAGCAGAUCCGGUGAGAUGCCGGAGCCGACGGUUAAAGUCCGGAUGGAAGAGAGCGAAU,Z46864.1/50-213 AE009695.1/6814-6651 AE014565.1/1997-2160,50-213,0,163,Z46864.1/50-213
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,36317,X95955.1,1,sp|X95955.1|BARIBGENS B.amyloliquefaciens ribB; ribG; ribA; ribH & ribT genes,0,86,376,523,122.63,UGUAUCCUUCGGGGCUGGGUGAAAAUCCCGACCGGCGGUAAUAAGGCGCUCCUGCGCUUUACAGCCCGUGACCCGUAUGCAUCUGUAUACGGUGGAUUCAGUGAAAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAG,X95955.1/376-523,376-523,0,147,X95955.1/376-523
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,40127,L09228.1,1,sp|L09228.1|BSDIA Bacillus subtilis spoVA to serA region.,0,87,7992,8136,104.84,UUGUAUCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU,Z99116.2/21661-21517 L09228.1/7992-8136,7992-8136,0,144,L09228.1/7992-8136
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,41863,X51510.1,1,sp|X51510.1|BSRIB B.subtilis riboflavin biosynthesis operon ribG; ribB; ribA; ribH; and ribT genes.,0,88,938,1082,109.18,UGUAUCCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU,X59538.1/81-225 X51510.1/938-1082,938-1082,0,144,X51510.1/938-1082
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,41865,X59538.1,1,sp|X59538.1|BSRIBOFLV B.subtilis DNA for promoter and terminator of riboflavin biosynthesis operon,0,89,81,225,109.18,UGUAUCCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU,X59538.1/81-225 X51510.1/938-1082,81-225,0,144,X59538.1/81-225
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42010,L47648.1,1,sp|L47648.1|BSSERA Bacillus subtilis phosphoglycerate dehydrogenase (serA); ypaA; ferredoxin (fer); ypbB; recS; ypbD; ypbE; ypbF; ypbG; ypbH; glutamate dehydrogenase (ypcA); ypdA; ypdB; ypdC; spore cortex lytic enzyme (sleB); ypeB; ypfA; ypfB; cytidine monophosphate kinase (cmk); ypfD; ypgA; yphA; yphB; yphC; NAD+ dependent glycerol-3-phosphate dehydrogenase (glyc); yphE and yphF genes; complete cds.,0,90,1826,1960,132.27,AUCAAUCUUCGGGGCAGGGUGAAAUUCCCUACCGGCGGUGAUGAGCCAAUGGCUCUAAGCCCGCGAGCUGUCUUUACAGCAGGAUUCGGUGAGAUUCCGGAGCCGACAGUACAGUCUGGAUGGGAGAAGAUGGAG,L47648.1/1826-1960 Z99116.2/921-787,1826-1960,0,134,L47648.1/1826-1960
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42393,Z99116.2,1,sp|Z99116.2|BSUB0013 Bacillus subtilis complete genome (section 13 of 21): from 2409151 to 2613687.,1,91,21661,21517,104.84,UUGUAUCUUCGGGGCAGGGUGGAAAUCCCGACCGGCGGUAGUAAAGCACAUUUGCUUUAGAGCCCGUGACCCGUGUGCAUAAGCACGCGGUGGAUUCAGUUUAAGCUGAAGCCGACAGUGAAAGUCUGGAUGGGAGAAGGAUGAU,Z99116.2/21661-21517 L09228.1/7992-8136,21661-21517 921-787,0,144,Z99116.2/21661-21517
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42393,Z99116.2,1,sp|Z99116.2|BSUB0013 Bacillus subtilis complete genome (section 13 of 21): from 2409151 to 2613687.,1,92,921,787,132.27,AUCAAUCUUCGGGGCAGGGUGAAAUUCCCUACCGGCGGUGAUGAGCCAAUGGCUCUAAGCCCGCGAGCUGUCUUUACAGCAGGAUUCGGUGAGAUUCCGGAGCCGACAGUACAGUCUGGAUGGGAGAAGAUGGAG,L47648.1/1826-1960 Z99116.2/921-787,21661-21517 921-787,0,134,Z99116.2/921-787
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43033,BX640412.1,1,sp|BX640412.1|BX640412 Bordetella pertussis strain Tohama I; complete genome; segment 2/12,0,93,135572,135725,132.25,GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUGCCACGCAAUGUGGCGAGCCCGCGAGCGCCCUGCGUUGGCAACAGCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGGCCGACGGUCAUAGUCCGGAUGAGAGAAGAUGUGC,BX640436.1/209532-209685 BX640412.1/135572-135725 BX640452.1/73704-73857,135572-135725,0,153,BX640412.1/135572-135725
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43057,BX640436.1,1,sp|BX640436.1|BX640436 Bordetella parapertussis strain 12822; complete genome; segment 14/14,0,94,209532,209685,132.25,GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUGCCACGCAAUGUGGCGAGCCCGCGAGCGCCCUGCGUUGGCAACAGCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGGCCGACGGUCAUAGUCCGGAUGAGAGAAGAUGUGC,BX640436.1/209532-209685 BX640412.1/135572-135725 BX640452.1/73704-73857,209532-209685,0,153,BX640436.1/209532-209685
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43073,BX640452.1,1,sp|BX640452.1|BX640452 Bordetella bronchiseptica strain RB50; complete genome; segment 16/16,0,95,73704,73857,132.25,GUACGUCUUCAGGGCGGGGUGCAAUUCCCCACCGGCGGUAUGCCACGCAAUGUGGCGAGCCCGCGAGCGCCCUGCGUUGGCAACAGCGCAGGGGUCAGCAGACCUGGUGAGAUGCCAGGGCCGACGGUCAUAGUCCGGAUGAGAGAAGAUGUGC,BX640436.1/209532-209685 BX640412.1/135572-135725 BX640452.1/73704-73857,73704-73857,0,153,BX640452.1/73704-73857
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,48585,U28377.1,1,sp|U28377.1|EC28377 Escherichia coli K-12 genome; approximately 65 to 68 minutes.,1,96,139106,138958,137.50,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,AE000386.1/2256-2108 AE005534.1/2257-2109 AE015320.1/2277-2129 AP002564.1/19513-19365 AE016988.1/252559-252411 U28377.1/139106-138958,139106-138958,0,148,U28377.1/139106-138958
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,49103,AE000386.1,1,sp|AE000386.1|ECAE386 Escherichia coli K12 MG1655 section 276 of 400 of the complete genome.,1,97,2256,2108,137.50,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,AE000386.1/2256-2108 AE005534.1/2257-2109 AE015320.1/2277-2129 AP002564.1/19513-19365 AE016988.1/252559-252411 U28377.1/139106-138958,2256-2108,0,148,AE000386.1/2256-2108
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,775,M64472.1,1,sp|M64472.1|ECHTRP E.coli htrP gene; complete cds.,0,98,901,1048,129.73,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,X66720.1/387-534 M64472.1/901-1048,901-1048,0,147,M64472.1/901-1048
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,2446,X66720.1,1,sp|X66720.1|ECRIBB E.coli ribB gene for 3;4-dihydroxy-2-butanone 4-phosphate synthase,0,99,387,534,129.73,GCUUAUUCUCAGGGCGGGGCGAAAUUCCCCACCGGCGGUAAAUCAACUCAGUUGAAAGCCGCGAGCGCUUUGGGUGCGAACUCAAAGGACAGCAGAUCCGGUGUAAUUCCGGGGCCGACGGUUAGAGUCCGGAUGGGAGAGAGUAACG,X66720.1/387-534 M64472.1/901-1048,387-534,0,147,X66720.1/387-534
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,5787,U32760.1,1,sp|U32760.1|HI32760 Haemophilus influenzae Rd section 75 of 163 of the complete genome.,0,100,7642,7819,135.78,UCGCAUUCUCAGGGCAGGGUGAAAUUCCCUACCGGUGGUAAAGCCCACGAGCGUUUAAAAGUGCGGUCAAUUUUUGGCAAAUUUUUCCUGCGAAAUUGUCCUGAUUUUCACUUUUAAAGUCAGCAGAUUUGGUGAAAUUCCAAAGCCGACAGUAAAGUCUGGAUGAAAGAGAAUAAAA,U32760.1/7642-7819,7642-7819,0,177,U32760.1/7642-7819
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,21684,U23806.1,1,sp|U23806.1|PS23806 Providencia stuartii putative Mg2+ transport protein MgtE (mgtE) gene; complete cds.,0,101,70,220,38.20,CGCUUAUCUCAGGGCGGGGUGGAAGUCCCCACCGGCGGUAACAUGCCUAGGCAUGAAGCCCGCGAGCGCUUUAUCAUUUGUUAGGGUAAAGGUCAGCAGAUCAGGACAGGAUAUAUCGAACGAAGGUAUAUCCCCAUGUAACUUCCAAUGU,U23806.1/70-220,70-220,0,150,U23806.1/70-220
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,26975,AL766847.1,1,sp|AL766847.1|SAG766847 Streptococcus agalactiae NEM316 complete genome; segment 5,0,102,1,103,100.76,CUUCGGGGUCAGGUGAAAAUCCUAACCGGCGGUAUAGUCCGCGAGCUUUCGAGCAUGAACUGGUGUGAUUCCAGUACCGACAGUAAAGUCUGGAUGAGAGAAG,AL766847.1/1-103,1-103,0,102,AL766847.1/1-103
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,26979,AL766851.1,1,sp|AL766851.1|SAG766851 Streptococcus agalactiae NEM316 complete genome; segment 9,1,103,11027,10882,132.94,AGGUGUCUUCAGGGCAGGGUGUAAUUCCCGACCGGCGGUAAUCGCUUCCAACUUAUUUGUCAGUUGUGAAGCAUCAGUCCGCGAGCGAAAGCUGAUGUGGUGAGAUUCCACAACCGACAGUAAAGUCUGGAUGGGAGAAGACAAAG,AL766851.1/11027-10882 AE014256.1/5466-5321,11027-10882,0,145,AL766851.1/11027-10882
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,28275,AL939108.1,1,sp|AL939108.1|SCO939108 Streptomyces coelicolor A3(2) complete genome; segment 5/29,1,104,337004,336876,101.63,CAGCGCACUCCGGGGUCGGUGAAAGUCCGAACCGGCGGUUACAGUCCGCGACCCGGUCGCCUCCAGCGACCGGUUGACCAGGUGAAAUUCCUGGACCGACGGUUAAAGUCCGGAUGGGAGGCAGUGCGC,AL939108.1/337004-336876,337004-336876,0,128,AL939108.1/337004-336876
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,30225,AL591790.1,1,sp|AL591790.1|SME591790 Sinorhizobium meliloti 1021 complete chromosome; segment 9/12,0,105,15823,15987,133.27,AAGCGUUCUCAGGGCGGGGUGAAAUUCCCCACCGGCGGUAGCGAACACAGGAUCGGGAAUGGUCGGUGGUCGGAGCCCGCGAGCGCUUCGCAUUUCGUGCGAAGGUCAGCAGAUCCGGUCGAAUUCCGGAGCCGACGGUUAUAGUCCGGAUGGAAGAGAGCAAGC,AL591790.1/15823-15987,15823-15987,0,164,AL591790.1/15823-15987
./cmzasha --no-stderr --filter 250 25 Rfam/cm/RF00050.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00050_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00050_forwardinf_hmmtype1_Ecoli_0MM.bin ,Rfam/cm/RF00050.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,36179,AJ009832.1,1,sp|AJ009832.1|TNE9832 Thermotoga neapolitana malG; malA; aglA and ribD genes; partial,0,106,4549,4670,137.42,GAUCGCUCUCGGGGCAGGGUGGAAUUCCCGACCGGCGGUGAAAGCCCGCGAGCCCCCUUCUGGGGGUUGACCCGGUGGAAUUCCGGGGCCGACGGUGAAAGUCCGGAUGGGAGAGAGCGAAG,AJ009832.1/4549-4670,4549-4670,0,121,AJ009832.1/4549-4670



THINGS IN Rfam THAT WEREN'T FOUND:


# hits found that weren't in Rfam: 0 (totally new = 0, overlaps hit in Rfam = 0, overlap hits with more than 10 nucs = 0,  total # hits with 0 overlap with Rfam (ignoring sequence matching) = 0)
# Rfam hits not found: 0 (no overlap of >= 10 nucs: 0)
# Rfam seqs not found: 0 (no overlap of >= 10 nucs: too tricky to calculate)