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 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,16401,AC025951.19,1,sp|AC025951.19|AC025951 Staphylococcus aureus clone sabac-32; complete sequence.,0,0,16427,16529,77.96,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCAUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AP003130.2/203537-203639 AP004823.1/196716-196818 AP003359.2/175906-176008 AC025951.19/16427-16529 AF368293.1/122-224,16427-16529,0,102,AC025951.19/16427-16529
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,16755,AE000524.1,1,sp|AE000524.1|AE000524 Helicobacter pylori 26695 section 2 of 134 of the complete genome.,1,1,4105,4007,57.26,UAUUUAGACCUAUGCAAUAGGAUUUUAGGGUAACGCUUCAGGGUAGGAAUACAGCAGAGUCCCCUAAUUUCUUGUGUGCCUUAGCCAUCUGAAUAGGAG,AE000524.1/4105-4007,4105-4007,0,98,AE000524.1/4105-4007
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,16979,AE000759.1,1,sp|AE000759.1|AE000759 Aquifex aeolicus VF5 section 91 of 109 of the complete genome.,0,2,8326,8428,51.13,UAUUAAUUAGCCCUGCGGCGGGACAGGGUGAACUCCCCCAGGCCCGAAAGGGAGCAAGGGUAAGCCCGCCGUCCCGUGCGCAGGGUCCUAAAACAAAUACCCU,AE000759.1/8326-8428,8326-8428,0,102,AE000759.1/8326-8428
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17365,AE001151.1,1,sp|AE001151.1|AE001151 Borrelia burgdorferi B31 (section 37 of 70) of the complete genome.,0,3,4235,4334,57.74,UCCUAGGACCCGUACUAUCAAGUAUUGCUGAAUCCCGUCAGGACUGGAAGGUAGCAGCGGUAAGCGAUUUUUUUGAUGAGUACGUAAGUCUUAGGUUUAA,AE001151.1/4235-4334,4235-4334,0,99,AE001151.1/4235-4334
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17401,AE001187.1,1,sp|AE001187.1|AE001187 Treponema pallidum section 3 of 87 of the complete genome.,1,4,2892,2797,57.60,UCCGGGGCCGCCCACGAAAUAUCCCCCAAACCCCGCUAGGUCCGGAAGGAAGCAACGGUAGGGGGACGCUUCGGUGCGCGAUCCGCCCCGGUUUUC,AE001187.1/2892-2797,2892-2797,0,95,AE001187.1/2892-2797
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17510,AE001298.1,1,sp|AE001298.1|AE001298 Chlamydia trachomatis section 25 of 87 of the complete genome.,1,5,7270,7169,66.38,GCUGGGGACCUCUUAAGAUGAGAGACUUCUGAACCGGGUCAGGAUCGGAAGGUAGCAGCCCUAAGGAUAGGCCUUUUGUGCUAGGAGUUUUCUCUGGCUUAC,AE001298.1/7270-7169,7270-7169,0,101,AE001298.1/7270-7169
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17576,AE001441.1,1,sp|AE001441.1|AE001441 Helicobacter pylori; strain J99 section 2 of 132 of the complete genome.,1,6,7008,6910,59.32,UAUUUGGACCUAUGCAAUAGGACUUUAGGGUAACGCUUCAGGGUAGGAAUACAGCAGAGUCCCCUAAUUUCUUGUGUGCCUUAGCCAUCUGAAUAGGAG,AE001441.1/7008-6910,7008-6910,0,98,AE001441.1/7008-6910
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17756,AE001624.1,1,sp|AE001624.1|AE001624 Chlamydia pneumoniae section 40 of 103 of the complete genome.,1,7,2125,2022,63.46,GUUGGGGGCCUUUUAAGAGAAGGAACCUGCGAAUCGGGUCAGGACUGGAAGGUAGCAGCCCUAAGGAGAGUUUUCUUUUGCUAAAAGAAUGUUCUCCAACUUAC,AE017158.1/144055-143952 AE002198.2/1639-1742 AE001624.1/2125-2022 AP002546.2/147527-147424,2125-2022,0,103,AE001624.1/2125-2022
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,17900,AE001769.1,1,sp|AE001769.1|AE001769 Thermotoga maritima section 81 of 136 of the complete genome.,1,8,12519,12419,87.36,GACCGGGUCCCACGCAACGGAACCCUGUGAACCUGGUCAGGCCCGGGAGGGAGCAGCCAUAAGCAGGUGUUUCCGUGUGCCGUGGGGGAGCCCGGUUGGAG,AE001769.1/12519-12419,12519-12419,0,100,AE001769.1/12519-12419
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,18152,AE002056.1,1,sp|AE002056.1|AE002056 Deinococcus radiodurans R1 section 193 of 229 of the complete chromosome 1.,0,9,2937,3036,85.73,UUGCUGGUGCAGCGCAGCGCGGACGCCCGAACCUGGUCAGAGCCGGAAGGCAGCAGCCAUAAGGGAUGCUUUGCGGGUGCCGUUGCCUUCCGGCAAUGCU,AE002056.1/2937-3036,2937-3036,0,99,AE002056.1/2937-3036
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,18201,AE002112.1,1,sp|AE002112.1|AE002112 Ureaplasma urealyticum section 13 of 59 of the complete genome.,1,10,7386,7284,55.51,AAUAUAUAUGUCAUUACAAUAUUAAGUAGCGAACCUUGUCAGGCCAGAGAUGGAGCAGCAAUAGCAAUAUCUUUUUAUGUGUGAUGACAUAUAUUAAUGUAAU,AE002112.1/7386-7284,7386-7284,0,102,AE002112.1/7386-7284
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,18277,AE002198.2,1,sp|AE002198.2|AE002198 Chlamydophila pneumoniae AR39; section 29 of 94 of the complete genome.,0,11,1639,1742,63.46,GUUGGGGGCCUUUUAAGAGAAGGAACCUGCGAAUCGGGUCAGGACUGGAAGGUAGCAGCCCUAAGGAGAGUUUUCUUUUGCUAAAAGAAUGUUCUCCAACUUAC,AE017158.1/144055-143952 AE002198.2/1639-1742 AE001624.1/2125-2022 AP002546.2/147527-147424,1639-1742,0,103,AE002198.2/1639-1742
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,18394,AE002321.1,1,sp|AE002321.1|AE002321 Chlamydia muridarum section 52 of 85 of the complete genome.,1,12,7246,7145,70.60,GUCGGGGACCUCUUAAGAUGAGAGACUUCUGAACCGGGUCAGGAUCGGAAGAUAGCAGCCCUAAGGAAAGGCCUUUUGUGCUAAGAGUCUUCUCUGACUUAC,AE002321.1/7246-7145,7246-7145,0,101,AE002321.1/7246-7145
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,18519,AE002450.1,1,sp|AE002450.1|AE002450 Neisseria meningitidis serogroup B strain MC58 section 92 of 206 of the complete genome.,1,13,10937,10840,60.29,GGCGGGUCUCCCCGCAUGGCAAAUCGGAACACCGGGUCAGGGGCGGAAGCCAGCAGCCCACUCCAAUGCGCCAGUGCCGGGGGUUUGGCCCGCCGCCC,AE002450.1/10937-10840,10937-10840,0,97,AE002450.1/10937-10840
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,18722,AE003940.1,1,sp|AE003940.1|AE003940 Xylella fastidiosa 9a5c; section 86 of 229 of the complete genome.,0,14,637,734,75.06,CUGCCGGUCCCUCGCAACGCUAGAUCGAAAACCCCGCCAGGGCCGGAAGGCAGCAACGGUAUUGAUUGAUGCGGGUGCCGAGAUCAACCGGUGGGGCC,AE003940.1/637-734 AE012554.1/97705-97802,637-734,0,97,AE003940.1/637-734
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,18961,AE004188.1,1,sp|AE004188.1|AE004188 Vibrio cholerae chromosome I; section 96 of 251 of the complete chromosome.,0,15,3985,4084,87.37,GCCCUGGUCCUCCCGCAACACUAGUUCGUGAACCUGGUCAGAUCCGGAAGGAAGCAGCCACAGCGGAUGAUGUGUGUGCCGGGAUGUGGCUGGGGUCUCC,AE004188.1/3985-4084,3985-4084,0,99,AE004188.1/3985-4084
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,19351,AE004581.1,1,sp|AE004581.1|AE004581 Pseudomonas aeruginosa PAO1; section 142 of 529 of the complete genome.,0,16,9670,9769,94.16,CUGUCGGUCCCCCCGCAACGAUUACCCGUCAACCUGGUCAGGUCCGGAAGGAAGCAGCCACAGCGGGAACAUCGUGUGCCGGGGUGUGGCUGGCGGGGCC,X14404.1/126-225 AE004581.1/9670-9769 M31829.1/126-225 X12644.1/103-202,9670-9769,0,99,AE004581.1/9670-9769
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,19988,AE005224.1,1,sp|AE005224.1|AE005224 Escherichia coli O157:H7 EDL933 genome; contig 1 of 3; section 48 of 155.,0,17,9131,9230,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,9131-9230,0,99,AE005224.1/9131-9230
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,20461,AE005700.1,1,sp|AE005700.1|AE005700 Caulobacter crescentus CB15 section 26 of 359 of the complete genome.,0,18,4149,4247,53.36,CGGAGAUCGGCGCGGACGGAGUCCUCGCCAACCUGGUCAGGGCCGAGAGGCAGCAGCCACAACGAGAUCACCUCUGGGUCGUCUGCCGGUCUCCACCUC,AE005700.1/4149-4247 U22036.1/384-482,4149-4247,0,98,AE005700.1/4149-4247
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,20853,AE006092.1,1,sp|AE006092.1|AE006092 Pasteurella multocida PM70 section 59 of 204 of the complete genome.,0,19,9479,9578,73.39,UUCUCGGUUCCUCGCAAUGGUGUCUGGUUUACCCGGUCAGGUUCGGAAGAAAGCAGCCAAAGUCAGAAUUUCUGUGUGCCGAGAUCAAGCUGGGAAGGUU,AE006092.1/9479-9578,9479-9578,0,99,AE006092.1/9479-9578
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,21065,AE006305.1,1,sp|AE006305.1|AE006305 Lactococcus lactis subsp. lactis IL1403 section 67 of 218 of the complete genome.,0,20,11173,11256,49.99,UUCGGAGCAAUAAGUUUCUUACGAAGCGUGUCAGGACCUGACGGUAGCAGCACUAAGUAUGGAGCUUAUGUGCUCUUUUUUUGU,AE006305.1/11173-11256,11173-11256,0,83,AE006305.1/11173-11256
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,21240,AE006489.1,1,sp|AE006489.1|AE006489 Streptococcus pyogenes M1 GAS strain SF370; section 18 of 167 of the complete genome.,0,21,4472,4573,61.25,UAAUAAUAGGCGGAGCAACACUUGUGCGUGAAGUGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUUUUCGGGUGUGUGCUCUUUUUUUGUUGACUUUAC,AE006489.1/4472-4573 AE009969.1/3440-3541,4472-4573,0,101,AE006489.1/4472-4573
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,21926,AE007179.1,1,sp|AE007179.1|AE007179 Mycobacterium tuberculosis CDC1551;  section 265 of 280 of the complete genome.,1,22,1542,1442,48.93,CACGGUGGACCCCGCGCGGCGUCUAUCCUGUGAACUCCCCCAGGGCUGGAAGGCAGCAAGGGUCAACGGGCUCUGUCGGGUGCGCGGGGUCCCCUUCAGCC,BX248347.1/38747-38647 AE007179.1/1542-1442 AL022121.1/75384-75284,1542-1442,0,100,AE007179.1/1542-1442
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22064,AE007319.1,1,sp|AE007319.1|AE007319 Streptococcus pneumoniae TIGR4  section 2 of 194 of the complete genome.,0,23,10469,10548,54.84,GUGGAGCAACAGUUCUGCGUGAAGCGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUUUGAAUUGUGUGCUCUUUUUU,AE007319.1/10469-10548,10469-10548,0,79,AE007319.1/10469-10548
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22269,AE007525.1,1,sp|AE007525.1|AE007525 Clostridium acetobutylicum ATCC824 section 13 of 356 of the complete genome.,0,24,2612,2714,93.41,GAAUUGGGUCCCACGCAACGGAAAUUCAUGAACUCCGUCAGGUCCGGAAGGAAGCAGCGGUAAGUGAAAUCUUCCGUGUGCCGUGGAUAAAUCUGAUUUGAGU,AE007525.1/2612-2714,2612-2714,0,102,AE007525.1/2612-2714
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,22691,AE007951.1,1,sp|AE007951.1|AE007951 Agrobacterium tumefaciens str. C58 circular chromosome; section 9 of 254 of the complete sequence.,1,25,6862,6765,56.64,GGAGGUUGGUGGUGGACGAGCCACUCGCCAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAACGAGCCAGGCACGGGUCGCCGUGCCAGCCUCCCACC,AE008984.1/134-37 AE007951.1/6862-6765,6862-6765,0,97,AE007951.1/6862-6765
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,23125,AE008386.1,1,sp|AE008386.1|AE008386 Streptococcus pneumoniae R6 section 2 of 184 of the complete genome.,0,26,10463,10553,55.55,AAAUAGUGGAGCAACAGUUCUGCGUGAAGCGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUUUGAAUUGUGUGCUCUUUUUUUCGUGC,AE008386.1/10463-10553,10463-10553,0,90,AE008386.1/10463-10553
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,23446,AE008717.1,1,sp|AE008717.1|AE008717 Salmonella typhimurium LT2; section 25 of 220 of the complete genome.,0,27,10281,10380,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,10281-10380,0,99,AE008717.1/10281-10380
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,23705,AE008984.1,1,sp|AE008984.1|AE008984 Agrobacterium tumefaciens strain C58 circular chromosome; section 10 of 256 of the complete sequence.,1,28,134,37,56.64,GGAGGUUGGUGGUGGACGAGCCACUCGCCAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAACGAGCCAGGCACGGGUCGCCGUGCCAGCCUCCCACC,AE008984.1/134-37 AE007951.1/6862-6765,134-37,0,97,AE008984.1/134-37
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,24341,AE009624.1,1,sp|AE009624.1|AE009624 Brucella melitensis 16M chromosome I; section 181 of 195 of the complete sequence.,0,29,3418,3518,57.42,GGGAGGUUGGUGGUGGACGAGCCACUCGCCAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAACGAGCCACGGCACGGGUCAUCGUGCCAGCCUCCCACCC,AE009624.1/3418-3518 AE014318.1/5996-5896,3418-3518,0,100,AE009624.1/3418-3518
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,24680,AE009969.1,1,sp|AE009969.1|AE009969 Streptococcus pyogenes strain MGAS8232; section 17 of 173 of the complete genome.,0,30,3440,3541,61.25,UAAUAAUAGGCGGAGCAACACUUGUGCGUGAAGUGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUUUUCGGGUGUGUGCUCUUUUUUUGUUGACUUUAC,AE006489.1/4472-4573 AE009969.1/3440-3541,3440-3541,0,101,AE009969.1/3440-3541
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,25238,AE010530.1,1,sp|AE010530.1|AE010530 Fusobacterium nucleatum subsp. nucleatum ATCC 25586; section 72 of 197 of the complete genome.,0,31,10609,10690,49.15,GGGGAUAUGAUAUAUUAUUGUCGAACCGUGUCAGAUCUGGAAGGAAGCAGCACUAAGAUUUAUAGUAUAUGCAUGUCUUCCU,AE010530.1/10609-10690,10609-10690,0,81,AE010530.1/10609-10690
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,26447,AE011739.1,1,sp|AE011739.1|AE011739 Xanthomonas axonopodis pv. citri str. 306;  section 117 of 469 of the complete genome.,1,32,1899,1802,78.20,CCGUCGGUCCCUCGCGACGCUAGAUCGAAAAUCCCGCCAGGGCCGGAAGGCAGCAACGGUAUCGAUUGAUGCGGGCGCCGAGGUCAACCGGCGGGGAC,AE011739.1/1899-1802 AE012197.1/305-402,1899-1802,0,97,AE011739.1/1899-1802
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,26904,AE012197.1,1,sp|AE012197.1|AE012197 Xanthomonas campestris pv. campestris str. ATCC 33913;  section 105 of 460 of the complete genome.,0,33,305,402,78.20,CCGUCGGUCCCUCGCGACGCUAGAUCGAAAAUCCCGCCAGGGCCGGAAGGCAGCAACGGUAUCGAUUGAUGCGGGCGCCGAGGUCAACCGGCGGGGAC,AE011739.1/1899-1802 AE012197.1/305-402,305-402,0,97,AE012197.1/305-402
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,27261,AE012554.1,1,sp|AE012554.1|AE012554 Xylella fastidiosa Temecula1;  section 2 of 9 of the complete genome.,0,34,97705,97802,75.06,CUGCCGGUCCCUCGCAACGCUAGAUCGAAAACCCCGCCAGGGCCGGAAGGCAGCAACGGUAUUGAUUGAUGCGGGUGCCGAGAUCAACCGGUGGGGCC,AE003940.1/637-734 AE012554.1/97705-97802,97705-97802,0,97,AE012554.1/97705-97802
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,27270,AE012781.1,1,sp|AE012781.1|AE012781 Chlorobium tepidum TLS  section 2 of 194 of the complete genome.,1,35,271,172,63.26,GAGUAAGUCCUAUACAGCAUUCUCUUGCCCAACCAUGUCAGGUCCGGAAGGAAGCAGCAUCCGGUAAUGUGAGUGCGUGAUAUAGUCAGCUUGCUCUCCU,AE012781.1/271-172,271-172,0,99,AE012781.1/271-172
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,27467,AE012978.1,1,sp|AE012978.1|AE012978 Thermoanaerobacter tengcongensis strain MB4T; section 5 of 244 of the complete genome.,0,36,9827,9929,87.77,UACUUGAGUCCUGCGCAACGGAGAUUUGCGAACCCCGUCAGGUCCGGAAGGAAGCAGCGGUAAGCAAACACCUCCGUGUGCCGCAGGGGUGCUUGAGUGGAGC,AE012978.1/9827-9929,9827-9929,0,102,AE012978.1/9827-9929
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28193,AE013708.1,1,sp|AE013708.1|AE013708 Yersinia pestis KIM section 108 of 415 of the complete genome.,0,37,4576,4675,93.18,CUGUUGGUUCUCCCGCAACACUAACUUGUGAACUCGGUCAGGUCCGGAAGGAAGCAGCCGCAGCAGGCGAGGUGUGUGCCGGGAUGUAGCUGGCAGGGCC,AJ414155.1/123559-123460 AE013708.1/4576-4675,4576-4675,0,99,AE013708.1/4576-4675
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28502,AE014017.1,1,sp|AE014017.1|AE014017 Buchnera aphidicola str. Bp (Baizongia pistaciae); section 2 of 2 of the complete genome.,1,38,189606,189504,49.03,UGUUAGUACUCUAUAAUACUGUAAUUCUUAAGAAUUUGGUCAGGAUUGGAAAAUAGCAGCCAUAUUAAGACAGUACAGGUAUUACGAAUAUUACUAACAGAGA,AE014017.1/189606-189504,189606-189504,0,102,AE014017.1/189606-189504
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28549,AE014122.1,1,sp|AE014122.1|AE014122 Buchnera aphidicola str. Sg (Schizaphis graminum) section 47 of 57 of the complete genome.,1,39,13297,13199,51.15,CUGUUAGUCCUAAACACUGUUAAAUUGAAUAAUUGGUCAGAUCUGGAAAGAAGCAGCCAAAUCAAUCGAUACAGGUGUUUUGAUAUAGCUAACAGAAUC,AE014122.1/13297-13199,13297-13199,0,98,AE014122.1/13297-13199
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28563,AE014139.1,1,sp|AE014139.1|AE014139 Streptococcus pyogenes MGAS315; section 4 of 37 of the complete genome.,0,40,28322,28424,59.87,UAAUAAUAGGCGGAGCAACACUUGUGCGUGAAGUGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUUUUCGGGUGUGUGCUCUUUUUUUUGUUGACUUUAC,AE014139.1/28322-28424 AP005141.1/177237-177339,28322-28424,0,102,AE014139.1/28322-28424
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28615,AE014209.1,1,sp|AE014209.1|AE014209 Streptococcus agalactiae 2603V/R section 19 of 100 of the complete genome.,0,41,18006,18083,54.59,UGGAGCAACAUUUACUCGUGAAGUGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUGCUAAAUGUGUGCUCUUUUU,AL766845.1/74921-74998 AE014209.1/18006-18083,18006-18083,0,77,AE014209.1/18006-18083
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,28700,AE014318.1,1,sp|AE014318.1|AE014318 Brucella suis 1330 chromosome I section 4 of 190 of the complete genome.,1,42,5996,5896,57.42,GGGAGGUUGGUGGUGGACGAGCCACUCGCCAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAACGAGCCACGGCACGGGUCAUCGUGCCAGCCUCCCACCC,AE009624.1/3418-3518 AE014318.1/5996-5896,5996-5896,0,100,AE014318.1/5996-5896
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,29223,AE014879.1,1,sp|AE014879.1|AE014879 Streptococcus mutans UA159 section 27 of 185 of the complete genome.,0,43,5292,5392,61.36,UAAUAGAUAUCGGAGCAACAGCUUUGCGUGAAGCGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUGUAAGCUGUGUGCUCUAUUUUUUGUGUAAUAGU,AF132127.1/652-752 AE014879.1/5292-5392,5292-5392,0,100,AE014879.1/5292-5392
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,29416,AE015072.1,1,sp|AE015072.1|AE015072 Shigella flexneri 2a str. 301 section 35 of 412 of the complete genome.,0,44,2645,2744,81.54,CUGUUGGUUCUCCCGCAAUGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE015072.1/2645-2744 AE016979.1/122818-122917,2645-2744,0,99,AE015072.1/2645-2744
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,29967,AE015625.1,1,sp|AE015625.1|AE015625 Shewanella oneidensis MR-1 section 174 of 457 of the complete genome.,0,45,7728,7828,76.91,CCUAGGGUCCCCCCGCAAUGAUAACUUGUGAACUCGGCCAGGCCCGGAAGGGAGCAACCGCAGCAAGCGACUCGUGUGCCGGGGUGUCGGCUCUAGGGGAA,AE015625.1/7728-7828,7728-7828,0,100,AE015625.1/7728-7828
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30273,AE015936.1,1,sp|AE015936.1|AE015936 Clostridium tetani E88; section 1 of 10 of the complete genome.,1,46,24077,23975,92.04,GAAUUGGGUCCCACGCAACGGAAACUCAUGAAACCCGUCAGGUCCGGAAGGAAGCAGCGGUAAGUGAUAAUUUUCGUGUGCCGUGGAUAAACCUGGUUUGAGU,AE015936.1/24077-23975,24077-23975,0,102,AE015936.1/24077-23975
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30290,AE016751.1,1,sp|AE016751.1|AE016751 Staphylococcus epidermidis ATCC 12228; section 8 of 9 of the complete genome.,1,47,278474,278372,78.49,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCCUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AF269831.1/1332-1434 AF269814.1/2628-2730 AE016751.1/278474-278372,278474-278372,0,102,AE016751.1/278474-278372
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30293,AE016756.1,1,sp|AE016756.1|AE016756 Escherichia coli CFT073 section 2 of 18 of the complete genome.,0,48,250756,250855,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,250756-250855,0,99,AE016756.1/250756-250855
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30326,AE016790.1,1,sp|AE016790.1|AE016790 Pseudomonas putida KT2440 section 17 of 21 of the complete genome.,1,49,27184,27085,88.03,CCAUCGGUCCCCCCGCAUUGAUUACCCGUUAACCUGGUCAGGCCCGGAAGGGAGCAGCCAUAGCGGGAACAUCGAGUGCCGGGGUGUGGCUGGUGGGGCC,AE016790.1/27184-27085,27184-27085,0,99,AE016790.1/27184-27085
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30341,AE016807.1,1,sp|AE016807.1|AE016807 Vibrio vulnificus CMCP6 chromosome I section 11 of 11 of the complete sequence.,1,50,204906,204809,84.42,CUCUGGUCCUCUCGCAACAAUAGUUCGUGAACUCGGUCAGGUCCGGAAGGAAGCAGCCGCAGCGAAUGACUUGUGUGCCGGGAUGUGGCUGGGGUCCC,AE016807.1/204906-204809,204906-204809,0,97,AE016807.1/204906-204809
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30360,AE016842.1,1,sp|AE016842.1|AE016842 Salmonella enterica subsp. enterica serovar Typhi Ty2; section 9 of 16 of the complete genome.,1,51,59881,59782,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,59881-59782,0,99,AE016842.1/59881-59782
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30370,AE016852.1,1,sp|AE016852.1|AE016852 Tropheryma whipplei str. Twist; section 3 of 3 of the complete genome.,1,52,219821,219717,49.01,UAGUUUGCCUCCGCGCGGCGUUACCCGGGUGAACUCCCCCAGGUUAGGAAUAAAGCAAGGGUAGCUCGGCUCUGGCGGGUGUGCGGGGGUCUUGCGGGCUCCGUU,AE016852.1/219821-219717 BX251412.1/198570-198466,219821-219717,0,104,AE016852.1/219821-219717
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30386,AE016869.1,1,sp|AE016869.1|AE016869 Pseudomonas syringae pv. tomato str. DC3000 section 14 of 21 of the complete genome.,1,53,50218,50119,91.71,CCAUCGGUCCCCCCGCAACGAUUACCCGUGAACCUGGUCAGAUCCGGAAGGAAGCAGCCACAGCGGGAACAUUGUGUGCCGGGGUGUGGCUGGUGGGGGC,AE016869.1/50218-50119,50218-50119,0,99,AE016869.1/50218-50119
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30422,AE016953.1,1,sp|AE016953.1|AE016953 Enterococcus faecalis V583; section 7 of 11 of the complete genome.,1,54,287032,286928,48.19,UUGCCGAAAGGCUAGGACAAUGGCGGGCUAGUGAAUUGUGUCAGAUCCGGAAGGAAGCAGCACUAAGCAAGUGCCGCCAUGUGUCUGAUUGAAUAAGGAACGUAU,AE016953.1/287032-286928,287032-286928,0,104,AE016953.1/287032-286928
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30429,AE016962.1,1,sp|AE016962.1|AE016962 Coxiella burnetii strain RSA 493; section 3 of 7 of the complete genome.,1,55,1746,1647,75.22,GCAGGGGUCCCCUCGCGACGAAUUGCCGUGAACCCCGCCAGGCCCGGAAGGGAGCAACGGUAGCGGUGGAUUUGGGUGCCGAGGUGCGGCUUUUGUGGCU,AE016962.1/1746-1647,1746-1647,0,99,AE016962.1/1746-1647
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30435,AE016968.1,1,sp|AE016968.1|AE016968 Mycoplasma gallisepticum strain R section 2 of 4 of the complete genome.,0,56,153147,153230,51.54,UAGCCAUUACAACAAUUAACACGAACCAUGUCAGGUCAGAAAUGAAGCAGCAUUAAGUAUCUUAAUUGUGUGUAAUGGCUUUUU,AE016968.1/153147-153230,153147-153230,0,83,AE016968.1/153147-153230
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30439,AE016979.1,1,sp|AE016979.1|AE016979 Shigella flexneri 2a str. 2457T section 2 of 16 of the complete genome.,0,57,122818,122917,81.54,CUGUUGGUUCUCCCGCAAUGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE015072.1/2645-2744 AE016979.1/122818-122917,122818-122917,0,99,AE016979.1/122818-122917
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30455,AE016995.1,1,sp|AE016995.1|AE016995 Chlamydophila caviae GPIC section 2 of 4 of the complete genome.,0,58,141474,141575,68.28,GUUGGGGACCUUUUAAGAGAAGAGACCUACGAAUCGGGUCAGGACUGGAAGGUAGCAGCCCUAAGAAGUGUUUUCUUUUGCUAGAAGUGUUCUCCAACUUAC,AE016995.1/141474-141575,141474-141575,0,101,AE016995.1/141474-141575
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30458,AE016998.1,1,sp|AE016998.1|AE016998 Bacillus cereus ATCC 14579 section 1 of 18 of the complete genome.,0,59,25108,25210,97.57,CGUUUGGGUCCUGCGCAACGGGACCCCGUGAACCUUGUCAGGUCCGGAAGGAAGCAGCAAUAAGCGGGUCUUCUCGUGUGCCGCAGGAGUGCCUGAACCGAGC,AE016998.1/25108-25210 AE017024.1/25228-25330 D11412.1/117-219,25108-25210,0,102,AE016998.1/25108-25210
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30476,AE017024.1,1,sp|AE017024.1|AE017024 Bacillus anthracis str. Ames section 1 of 18 of the complete genome.,0,60,25228,25330,97.57,CGUUUGGGUCCUGCGCAACGGGACCCCGUGAACCUUGUCAGGUCCGGAAGGAAGCAGCAAUAAGCGGGUCUUCUCGUGUGCCGCAGGAGUGCCUGAACCGAGC,AE016998.1/25108-25210 AE017024.1/25228-25330 D11412.1/117-219,25228-25330,0,102,AE017024.1/25228-25330
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.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.,1,61,180281,180184,68.26,UUAUUGGUUUCUCGCAGCAGAAUUCAGCUUACUUAGUCAGGGCCGGAAGGAAGCAGCUUGGGUUGAAUUUCUGGGUGCCGGGAGUCGCUGGUAAUACC,AE017154.1/180281-180184 U32175.1/5757-5660,180281-180184,0,97,AE017154.1/180281-180184
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30507,AE017158.1,1,sp|AE017158.1|AE017158 Chlamydophila pneumoniae TW-183; section 2 of 4 of the complete genome.,1,62,144055,143952,63.46,GUUGGGGGCCUUUUAAGAGAAGGAACCUGCGAAUCGGGUCAGGACUGGAAGGUAGCAGCCCUAAGGAGAGUUUUCUUUUGCUAAAAGAAUGUUCUCCAACUUAC,AE017158.1/144055-143952 AE002198.2/1639-1742 AE001624.1/2125-2022 AP002546.2/147527-147424,144055-143952,0,103,AE017158.1/144055-143952
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,30514,AE017165.1,1,sp|AE017165.1|AE017165 Prochlorococcus marinus subsp. marinus str. CCMP1375 section 5 of 6 of the complete genome.,1,63,76327,76230,60.88,GACUCGGGCCCAUGCGGCUUCGACGCCUAAAUCUGGUCAGGACCGGAAGGUAGCAGCCACAAGGGAUGCUUGAAUCUGGCGUGGAUUCCGGGUCACCU,AE017165.1/76327-76230 AJ237851.1/3373-3276,76327-76230,0,97,AE017165.1/76327-76230
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz,44185,AF132127.1,1,sp|AF132127.1|AF132127 Streptococcus mutans sorbitol phosphoenolpyruvate:sugar phosphotransferase operon; complete sequence and unknown gene.,0,64,652,752,61.36,UAAUAGAUAUCGGAGCAACAGCUUUGCGUGAAGCGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUGUAAGCUGUGUGCUCUAUUUUUUGUGUAAUAGU,AF132127.1/652-752 AE014879.1/5292-5392,652-752,0,100,AF132127.1/652-752
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,1572,AF203881.1,1,sp|AF203881.1|AF203881 Zymomonas mobilis strain ZM4 clone 43F4; complete sequence.,1,65,14961,14865,59.81,GUGGAAGUCGGGCGGACGGUGCUGUCGCCAACCCGGUCAGGUCCGGAAGGAAGCAGCCGUAACGAAUUUUUAUCGGGUCGUUCCGGCUUCCAUCGUC,AF203881.1/14961-14865,14961-14865,0,96,AF203881.1/14961-14865
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,10103,AF269814.1,1,sp|AF269814.1|AF269814 Staphylococcus epidermidis strain SR1 clone step.1023h12 genomic sequence.,0,66,2628,2730,78.49,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCCUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AF269831.1/1332-1434 AF269814.1/2628-2730 AE016751.1/278474-278372,2628-2730,0,102,AF269814.1/2628-2730
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,10120,AF269831.1,1,sp|AF269831.1|AF269831 Staphylococcus epidermidis strain SR1 clone step.1025d12 genomic sequence.,0,67,1332,1434,78.49,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCCUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AF269831.1/1332-1434 AF269814.1/2628-2730 AE016751.1/278474-278372,1332-1434,0,102,AF269831.1/1332-1434
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,23744,AF368293.1,1,sp|AF368293.1|AF368293 Staphylococcus aureus small cytoplasmic RNA gene; complete sequence.,0,68,122,224,77.96,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCAUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AP003130.2/203537-203639 AP004823.1/196716-196818 AP003359.2/175906-176008 AC025951.19/16427-16529 AF368293.1/122-224,122-224,0,102,AF368293.1/122-224
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz,40191,AF482014.1,1,sp|AF482014.1|AF482014 Neisseria gonorrhoeae SRP 4.5S RNA (ffs) gene; complete sequence.,0,69,11,108,64.28,UGCGGGUCUCCCCGCAUGGCAAAUCGGAACACCGGGUCAGGGGCGGAAGCCAGCAGCCCACUCCGAUGCGCCAGUGCCGGGGGUUUGGUCCGCCGCCC,AF482014.1/11-108,11-108,0,97,AF482014.1/11-108
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,343,AJ414155.1,1,sp|AJ414155.1|AJ414155 Yersinia pestis strain CO92 complete genome; segment 15/20,1,70,123559,123460,93.18,CUGUUGGUUCUCCCGCAACACUAACUUGUGAACUCGGUCAGGUCCGGAAGGAAGCAGCCGCAGCAGGCGAGGUGUGUGCCGGGAUGUAGCUGGCAGGGCC,AJ414155.1/123559-123460 AE013708.1/4576-4675,123559-123460,0,99,AJ414155.1/123559-123460
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,418,AL591984.1,1,sp|AL591984.1|AL591984 Listeria monocytogenes strain EGD; complete genome; segment 12/12,1,71,65413,65311,97.49,AGGUUGGGUCUUGCGCAAUGGGAACCUGUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGCAGUGCUUCUCAUGUGCCGCGAGGUCGCCUGGCCCGAGC,AL591984.1/65413-65311,65413-65311,0,102,AL591984.1/65413-65311
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,429,AL596173.1,1,sp|AL596173.1|AL596173 Listeria innocua Clip11262 complete genome; segment 11/12,1,72,263872,263770,93.09,AGGUUGGGUCUUGCGCAAUGGGAACCUGUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAUCAGUGCUUCUCAUGUGCCGCGAGGUUGCCUGGCCCGAGC,AL596173.1/263872-263770,263872-263770,0,102,AL596173.1/263872-263770
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,432,AL627266.1,1,sp|AL627266.1|AL627266 Salmonella enterica serovar Typhi (Salmonella typhi) strain CT18; complete chromosome; segment 2/20,0,73,266291,266390,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,266291-266390,0,99,AL627266.1/266291-266390
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,457,AL646063.1,1,sp|AL646063.1|AL646063 Ralstonia solanacearum GMI1000 chromosome; complete sequence; segment 7/19,1,74,55640,55539,74.15,GGACGGGCCUCCUCGCAUGGUGGCGCGGUCAACCUGGUCAGGUCGGGAACGAAGCAGCCACAGCCGUUUUCCGCCAGUGCCGAGGGUCAGGCUCGUCCCCCU,AL646063.1/55640-55539,55640-55539,0,101,AL646063.1/55640-55539
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,482,AL935253.1,1,sp|AL935253.1|AL935253 Lactobacillus plantarum strain WCFS1 complete genome; segment 2/11,0,75,299503,299604,55.47,CGCAAGGCCAAAAGGCAAGGGUGGAUUUACGAAUCGUGUCAGGUCCGGAAGGAAGCAGCACUAAGUUUGCUUCAUCUUGUGCCUUUUGUUUUUAUGAAAUGU,AL935253.1/299503-299604,299503-299604,0,101,AL935253.1/299503-299604
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,924,AP001119.1,1,sp|AP001119.1|AP001119 Buchnera aphidicola str. APS (Acyrthosiphon pisum) genomic DNA; complete sequence; segment 2/2.,1,76,183537,183439,48.78,CUGUUAGCUCCAAACACUGCAAUAUUGAAUAGUUGGUCAGAUUCGGAAGGAAGCAGCCAAAUCAAUUGAUACAGGUGUUCUGAUAAAGCUAACAGAAAC,AP001119.1/183537-183439,183537-183439,0,98,AP001119.1/183537-183439
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,926,AP001507.1,1,sp|AP001507.1|AP001507 Bacillus halodurans genomic DNA; section 1/14.,0,77,46599,46701,94.24,CGCUUGGGUUCUACGCAACGAAAACCCACGAACCCUGUCAGGUCCGGAAGGAAGCAGCAGUAAGUGGCCCCUUUCGUGUGCCGUAGAGUCGCCUGGGCCGAGC,AP001507.1/46599-46701,46599-46701,0,102,AP001507.1/46599-46701
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,943,AP002546.2,1,sp|AP002546.2|AP002546 Chlamydophila pneumoniae J138 genomic DNA; complete sequence; section 2/4.,1,78,147527,147424,63.46,GUUGGGGGCCUUUUAAGAGAAGGAACCUGCGAAUCGGGUCAGGACUGGAAGGUAGCAGCCCUAAGGAGAGUUUUCUUUUGCUAAAAGAAUGUUCUCCAACUUAC,AE017158.1/144055-143952 AE002198.2/1639-1742 AE001624.1/2125-2022 AP002546.2/147527-147424,147527-147424,0,103,AP002546.2/147527-147424
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,947,AP002551.1,1,sp|AP002551.1|AP002551 Escherichia coli O157:H7 DNA; complete genome; section 2/20.,0,79,261040,261139,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,261040-261139,0,99,AP002551.1/261040-261139
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,978,AP003006.2,1,sp|AP003006.2|AP003006 Mesorhizobium loti DNA; complete genome; section 13/21.,0,80,282608,282709,56.62,CGGGAGGUUGGUGGUGGACGAUCCACUCGCCAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAACGAGCCCGGAACGGGUCAUUGUUCCAGCCUCCCACCUC,AP003006.2/282608-282709,282608-282709,0,101,AP003006.2/282608-282709
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,992,AP003130.2,1,sp|AP003130.2|AP003130 Staphylococcus aureus subsp. aureus N315 genomic DNA; complete genome; section 2/10.,0,81,203537,203639,77.96,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCAUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AP003130.2/203537-203639 AP004823.1/196716-196818 AP003359.2/175906-176008 AC025951.19/16427-16529 AF368293.1/122-224,203537-203639,0,102,AP003130.2/203537-203639
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1002,AP003185.1,1,sp|AP003185.1|AP003185 Clostridium perfringens str. 13 DNA; complete genome; section 1/10.,0,82,54642,54744,97.02,GAGUUGGGCCCCACGCAAUGGAAACCUGUGAACCUCGUCAGGUCCGGAAGGAAGCAGCGAUAAGCAGUCAUUUUCAUGUGCCGUGGAUACGUCUGGCUUGAGC,D49784.1/399-501 AP003185.1/54642-54744,54642-54744,0,102,AP003185.1/54642-54744
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1013,AP003359.2,1,sp|AP003359.2|AP003359 Staphylococcus aureus subsp. aureus Mu50 genomic DNA; complete sequence; section 2/9.,0,83,175906,176008,77.96,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCAUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AP003130.2/203537-203639 AP004823.1/196716-196818 AP003359.2/175906-176008 AC025951.19/16427-16529 AF368293.1/122-224,175906-176008,0,102,AP003359.2/175906-176008
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1026,AP003584.1,1,sp|AP003584.1|AP003584 Nostoc sp. PCC 7120 DNA; complete genome; section 4/19.,1,84,338551,338454,62.58,GACCUGGAUCUAUGCGACUGCAACGCCUAAACCUUGUCAGGACCGGAAGGUAGCAGCAACACAGGAUGCUUGUGGUAGGCGUAGUCUCCGGGUCGCCC,AP003584.1/338551-338454,338551-338454,0,97,AP003584.1/338551-338454
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1053,AP004174.1,1,sp|AP004174.1|AP004174 Mycoplasma penetrans genomic DNA; complete sequence; section 5/5.,0,85,15607,15705,50.70,UAAUAUAGACGUCAUAACAUUAGAAGUGAAUCGUGUCAGGAUAGAAAUAUAGCAGCACUAAGCAAUAUCUUUUGUGUAUGGCGUCUUUUUUAUUAGAAU,AP004174.1/15607-15705,15607-15705,0,98,AP004174.1/15607-15705
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1055,AP004593.1,1,sp|AP004593.1|AP004593 Oceanobacillus iheyensis HTE831 genomic DNA; section 1/13.,0,86,30934,31036,92.49,CGCCCGGGUCCUGCGCAACAGGAACCCACGAAUCCUGUCAGGUCCGGAAGGAAGCAGCAGUAAGUGGUUAUUCUUGUGUGCCGCAGGGAAGCCUAGGCCGAGC,AP004593.1/30934-31036,30934-31036,0,102,AP004593.1/30934-31036
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1069,AP004823.1,1,sp|AP004823.1|AP004823 Staphylococcus aureus subsp. aureus MW2 DNA; complete genome; strain:MW2; section 2/10.,0,87,196716,196818,77.96,GAUUUCGGUCCUAUGCAAUAUGAACCCAUGAACCAUGUCAGGUCCUGACGGAAGCAGCAUUAAGUGGAUCAUCAUAUGUGCCGUAGGGUAGCCGAGAUUUAGC,AP003130.2/203537-203639 AP004823.1/196716-196818 AP003359.2/175906-176008 AC025951.19/16427-16529 AF368293.1/122-224,196716-196818,0,102,AP004823.1/196716-196818
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1095,AP005037.1,1,sp|AP005037.1|AP005037 Streptomyces avermitilis genomic DNA; complete genome; section 17/30.,1,88,294403,294301,47.03,GCGCAGCCCCUCACGUGGCGCUAUCUGACUGAACUCCCCCAGGGCCGGAAGUCAGCAAGGGUAGGUUGGCUCUGGCGGGUGCGUGGGGGGCGCUUGCGUUCCC,AP005037.1/294403-294301,294403-294301,0,102,AP005037.1/294403-294301
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1112,AP005076.1,1,sp|AP005076.1|AP005076 Vibrio parahaemolyticus DNA; chromosome 1; complete sequence; 4/11.,0,89,95721,95818,83.08,CUCUGGUCCUCUCGCAACAAUAGCUCGUGAACUCGGUCAGGUCCGGAAGGAAGCAGCCGCAGCGUGUGACUUGUGUGCCGGGAUGUGGCUGGGGUCCC,AP005076.1/95721-95818,95721-95818,0,97,AP005076.1/95721-95818
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1126,AP005141.1,1,sp|AP005141.1|AP005141 Streptococcus pyogenes SSI-1 DNA; complete genome; section 1/6.,0,90,177237,177339,59.87,UAAUAAUAGGCGGAGCAACACUUGUGCGUGAAGUGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUUUUCGGGUGUGUGCUCUUUUUUUUGUUGACUUUAC,AE014139.1/28322-28424 AP005141.1/177237-177339,177237-177339,0,102,AP005141.1/177237-177339
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.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.,0,91,220057,220145,48.34,GGAUCCCGUGCGGCGUUUAUCUUGUGAACUCCCCCAGGGCAGGAAUGCAGCAAGGGUCAGCGAGCUCUGACGGGUGCGCGGGAUCCCCU,AP005214.1/220057-220145 AP005274.1/256434-256522,220057-220145,0,88,AP005214.1/220057-220145
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.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.,0,92,256434,256522,48.34,GGAUCCCGUGCGGCGUUUAUCUUGUGAACUCCCCCAGGGCAGGAAUGCAGCAAGGGUCAGCGAGCUCUGACGGGUGCGCGGGAUCCCCU,AP005214.1/220057-220145 AP005274.1/256434-256522,256434-256522,0,88,AP005274.1/256434-256522
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1156,AP005369.1,1,sp|AP005369.1|AP005369 Thermosynechococcus elongatus BP-1 DNA; complete genome; section 1/9.,1,93,216057,215960,64.18,GGCUCGGAAUCAUGCGAUCGCAACGCCUCAACCUUGUCAGGUCCGGAAGGAAGCAGCAAUACGGGAUGCUUGCGAUAGGCGUGAUCUCCGGGUCACCC,AP005369.1/216057-215960,216057-215960,0,97,AP005369.1/216057-215960
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,1195,AP005964.1,1,sp|AP005964.1|AP005964 Bradyrhizobium japonicum USDA 110 DNA; complete genome; section 30/31.,1,94,208840,208743,53.04,GGAGAUUGGCGGUGGACGAGCCACUCGCCAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAACGAGGUCCGGAUCGGGUCGCUCGUCAGUCUCCUACC,AP005964.1/208840-208743,208840-208743,0,97,AP005964.1/208840-208743
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,35932,D11422.1,1,sp|D11422.1|BAALSCR B. alcalophilus gene for small cytoplasmic RNA.,0,95,117,217,89.95,CGUUGGGUUCUACGCAACGAAAACCCACGAACCCUGUCAGGUCCGGAAGGAAGCAGCAGUAAGUGGCCCCUUUCGUGUGCCGUAGAGUCGCUGGGCCGAGC,D11422.1/117-217,117-217,0,100,D11422.1/117-217
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,35944,D11416.1,1,sp|D11416.1|BAASCR B. amyloliquefaciens gene for small cytoplasmic RNA.,0,96,118,220,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,118-220,0,102,D11416.1/118-220
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,36363,D13041.1,1,sp|D13041.1|BASCRNA Bacillus amyloliquefaciens scr gene for scRNA.,0,97,118,220,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,118-220,0,102,D13041.1/118-220
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,36737,D12926.1,1,sp|D12926.1|BBD12926 Bacillus brevis scr gene for scRNA.,0,98,388,490,97.51,GGAGCGGGUCCUGUGCAACGCGAACCCAUGAACCUGGUCAGGUCCGGAAGGAAGCAGCCAUAAGUGGAUCAUCGCGUGUGCCGCAGGGUAGCCUGCUCUGAGC,D12926.1/388-490 D14472.1/591-693,388-490,0,102,D12926.1/388-490
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,37107,D14472.1,1,sp|D14472.1|BBSCRNA Bacillus brevis gene for scRNA.,0,99,591,693,97.51,GGAGCGGGUCCUGUGCAACGCGAACCCAUGAACCUGGUCAGGUCCGGAAGGAAGCAGCCAUAAGUGGAUCAUCGCGUGUGCCGCAGGGUAGCCUGCUCUGAGC,D12926.1/388-490 D14472.1/591-693,591-693,0,102,D14472.1/591-693
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,37494,D11419.1,1,sp|D11419.1|BCCISCR B. circulans gene for small cytoplasmic RNA.,0,100,119,221,90.30,CGUCCGGGUCCUGCGCAAUGGGAAUCCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGGACACCCCCAUGUGCCGCAGGGUUACCUGGACUGAGC,D11419.1/119-221,119-221,0,102,D11419.1/119-221
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,37497,D11413.1,1,sp|D11413.1|BCCSCR B. cereus gene for small cytoplasmic RNA.,0,101,118,216,89.62,CGUUUGGGUCCUGCGCAACGGGACCCGUGAACCUUGUCAGGUCCGGAAGGAAGCAGCAAUAAGCGGUCUUCUCGUGUGCCGAGAGUGCCUGAACCGAGC,D11413.1/118-216,118-216,0,98,D11413.1/118-216
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,38901,D11420.1,1,sp|D11420.1|BMMASCR B. macerans gene for small cytoplasmic RNA.,0,102,119,221,95.55,CGUCUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCUGAGC,D11420.1/119-221,119-221,0,102,D11420.1/119-221
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,38904,D11414.1,1,sp|D11414.1|BMMSCR B. megaterium gene for small cytoplasmic RNA.,0,103,117,219,95.35,CGUUUGGGUCCUACGCAAUGGGAAUCUGUGAACCCUGUCAGGUCCGGAAGGAAGCAGCAGUAAGCAGAACCUCUCAUGUGCCAUGGGGUCGCCUGAACCGAGC,D11414.1/117-219,117-219,0,102,D11414.1/117-219
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,39340,D11421.1,1,sp|D11421.1|BPPOSCR B. polymyxa gene for small cytoplasmic RNA.,0,104,119,221,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,119-221,0,102,D11421.1/119-221
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,39342,D11415.1,1,sp|D11415.1|BPPSCR B. pumilus gene for small cytoplasmic RNA.,0,105,117,219,96.82,CGUCUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,D11415.1/117-219,117-219,0,102,D11415.1/117-219
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,40452,X52144.1,1,sp|X52144.1|BSORF17 Bacillus subtilis DNA for ORF17; small cytoplasmic RNA and partial dnaX gene,0,106,810,912,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,810-912,0,102,X52144.1/810-912
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,41326,D26185.1,1,sp|D26185.1|BSPURA1 B. subtilis DNA; 180 kilobase region of replication origin.,0,107,90133,90235,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,90133-90235,0,102,D26185.1/90133-90235
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,41996,X15523.1,1,sp|X15523.1|BSSCR Bacillus stearothermophilus small cytoplasmic RNA,0,108,115,217,92.44,CGUCUGGGUCCCGCGCAAUGGGAUUCCGUGAACCCUGUCAGGUCCGGAAGGAAGCAGCAGUUAGCGGAUGCUCCCAUGUGCCGCGGGGGCGCCUGGGCUGAGC,X15523.1/115-217,115-217,0,102,X15523.1/115-217
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,41997,X14796.1,1,sp|X14796.1|BSSCRNA B.subtilis small cytoplasmic RNA gene and dnaZX-like gene (partial).,0,109,404,506,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,404-506,0,102,X14796.1/404-506
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,41998,X06802.1,1,sp|X06802.1|BSSCRNA1 Bacillus subtilis small cytoplasmic RNA (scRNA),0,110,118,220,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,118-220,0,102,X06802.1/118-220
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,41999,X12642.1,1,sp|X12642.1|BSSCRNAA Bacillus subtilis scRNA gene,0,111,405,507,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,405-507,0,102,X12642.1/405-507
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42127,D11418.1,1,sp|D11418.1|BSSPSCR B. sphaericus gene for small cytoplasmic RNA.,0,112,118,220,92.97,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGUUGCCUUGGGCCGAGC,D11418.1/118-220,118-220,0,102,D11418.1/118-220
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42138,D11417.1,1,sp|D11417.1|BSSSCR B. subtilis gene for small cytoplasmic RNA.,0,113,118,220,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,118-220,0,102,D11417.1/118-220
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42381,Z99104.2,1,sp|Z99104.2|BSUB0001 Bacillus subtilis complete genome (section 1 of 21): from 1 to 213080.,0,114,26531,26633,97.92,CGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGC,X06802.1/118-220 D13041.1/118-220 X12642.1/405-507 X14796.1/404-506 D11417.1/118-220 D11421.1/119-221 D26185.1/90133-90235 Z99104.2/26531-26633 X52144.1/810-912 D11416.1/118-220,26531-26633,0,102,Z99104.2/26531-26633
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42855,D11412.1,1,sp|D11412.1|BTTSCR B. thuringiensis gene for small cytoplasmic RNA.,0,115,117,219,97.57,CGUUUGGGUCCUGCGCAACGGGACCCCGUGAACCUUGUCAGGUCCGGAAGGAAGCAGCAAUAAGCGGGUCUUCUCGUGUGCCGCAGGAGUGCCUGAACCGAGC,AE016998.1/25108-25210 AE017024.1/25228-25330 D11412.1/117-219,117-219,0,102,D11412.1/117-219
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42972,BX248347.1,1,sp|BX248347.1|BX248347 Mycobacterium bovis subsp. bovis AF2122/97 complete genome; segment 14/14,1,116,38747,38647,48.93,CACGGUGGACCCCGCGCGGCGUCUAUCCUGUGAACUCCCCCAGGGCUGGAAGGCAGCAAGGGUCAACGGGCUCUGUCGGGUGCGCGGGGUCCCCUUCAGCC,BX248347.1/38747-38647 AE007179.1/1542-1442 AL022121.1/75384-75284,38747-38647,0,100,BX248347.1/38747-38647
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42978,BX251412.1,1,sp|BX251412.1|BX251412 Tropheryma whipplei TW08/27; complete genome; segment 3/3,1,117,198570,198466,49.01,UAGUUUGCCUCCGCGCGGCGUUACCCGGGUGAACUCCCCCAGGUUAGGAAUAAAGCAAGGGUAGCUCGGCUCUGGCGGGUGUGCGGGGGUCUUGCGGGCUCCGUU,AE016852.1/219821-219717 BX251412.1/198570-198466,198570-198466,0,104,BX251412.1/198570-198466
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,42990,BX294144.1,1,sp|BX294144.1|BX294144 Pirellula sp. strain 1 complete genome; segment 12/24,1,118,110364,110266,48.35,GGUGGCGACCCUUGCGACUGUGAGUCGUGAACCUGGUCAGGCCUUAACUGGAGCAGCCAUAAGCGGUGUAACUUUGUGUGAGGGUUGCCGCCACCGAGC,BX294144.1/110364-110266,110364-110266,0,98,BX294144.1/110364-110266
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43004,BX321857.1,1,sp|BX321857.1|BX321857 Nitrosomonas europaea ATCC 19718; complete genome; segment 2/10,0,119,168385,168486,75.49,UGGCGGGCCUCCCCGCAUUGUGAGGUAGUGAAUCUGGUCAGAUCCGGAAGGAAGCAGCCACAGCUAUUUUUCGCAAGUGCCGGGGGUUCGGCUCGCCACCCG,BX321857.1/168385-168486,168385-168486,0,101,BX321857.1/168385-168486
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43017,BX569693.1,1,sp|BX569693.1|BX569693 Synechococcus sp. WH8102 complete genome; segment 5/7,1,120,191291,191195,50.36,GACUCGGGCCAUGCGGCUCGGACGCCCAAAUCUGGUCAGGACCGGAAGGGAGCAGCCACACGGGAUGCUCAGAGCAGGCGUGGACUCCGGGUCACCC,BX569693.1/191291-191195,191291-191195,0,96,BX569693.1/191291-191195
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43023,BX572093.1,1,sp|BX572093.1|BX572093 Prochlorococcus marinus MED4 complete genome; segment 4/5,1,121,216574,216477,52.10,GACUCGGCCUUUCGCGGUUUUAACGCCCAAACCUGGUCAGGAUCGGAAGGUAGCAGCCACAAGGGAUGCUUGAGGCAGGCGAGAUAACCGAGUCACUU,AJ011025.1/3479-3382 BX572093.1/216574-216477,216574-216477,0,97,BX572093.1/216574-216477
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43026,BX572096.1,1,sp|BX572096.1|BX572096 Prochlorococcus marinus MIT9313 complete genome; segment 2/7,0,122,15940,16037,53.55,GACUCGGACCCAUGCGGCCGCGACGCCUAAAUCUGGUCAGGACCGGAAGGGAGCAGCCACACGGGAUGCUCGUGACAGGCGUGGACUCCGGGUCACCC,BX572096.1/15940-16037,15940-16037,0,97,BX572096.1/15940-16037
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43036,BX640415.1,1,sp|BX640415.1|BX640415 Bordetella pertussis strain Tohama I; complete genome; segment 5/12,0,123,240569,240667,71.60,GGCGGGCCCCUUCGCAUGGUUCGGCGGUGAAUCUGGUCAGGUCGGGAACGAAGCAGCCAUAGUCGUUCAGAACCAGUGCCGGAGUAAGGCUCGCCUACC,BX640426.1/255860-255958 BX640415.1/240569-240667 BX640441.1/143442-143540,240569-240667,0,98,BX640415.1/240569-240667
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43047,BX640426.1,1,sp|BX640426.1|BX640426 Bordetella parapertussis strain 12822; complete genome; segment 4/14,0,124,255860,255958,71.60,GGCGGGCCCCUUCGCAUGGUUCGGCGGUGAAUCUGGUCAGGUCGGGAACGAAGCAGCCAUAGUCGUUCAGAACCAGUGCCGGAGUAAGGCUCGCCUACC,BX640426.1/255860-255958 BX640415.1/240569-240667 BX640441.1/143442-143540,255860-255958,0,98,BX640426.1/255860-255958
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43062,BX640441.1,1,sp|BX640441.1|BX640441 Bordetella bronchiseptica strain RB50; complete genome; segment 5/16,0,125,143442,143540,71.60,GGCGGGCCCCUUCGCAUGGUUCGGCGGUGAAUCUGGUCAGGUCGGGAACGAAGCAGCCAUAGUCGUUCAGAACCAGUGCCGGAGUAAGGCUCGCCUACC,BX640426.1/255860-255958 BX640415.1/240569-240667 BX640441.1/143442-143540,143442-143540,0,98,BX640441.1/143442-143540
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43574,U22036.1,1,sp|U22036.1|CC22036 Caulobacter crescentus 4.5S RNA homolog (ffs) gene; partial sequence; and DNA polymerase III tau subunit (dnaX) gene; partial cds.,0,126,384,482,53.36,CGGAGAUCGGCGCGGACGGAGUCCUCGCCAACCUGGUCAGGGCCGAGAGGCAGCAGCCACAACGAGAUCACCUCUGGGUCGUCUGCCGGUCUCCACCUC,AE005700.1/4149-4247 U22036.1/384-482,384-482,0,98,U22036.1/384-482
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,43593,U49738.1,1,sp|U49738.1|CC49738 Caulobacter crescentus DNA polymerase III tau homolog DnaX (dnaX) gene; complete cds.,0,127,1,95,52.77,GAGAUCGGCGCGGACGGAGUCCUCGCCAACCUGGUCAGGGCCGAGAGGCAGCAGCCACAACGAGAUCACCUCUGGGUCGUCUGCCGGUCUCCACC,U49738.1/1-95,1-95,0,94,U49738.1/1-95
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,44364,AL139074.2,1,sp|AL139074.2|CJ11168X1 Campylobacter jejuni subsp. jejuni NCTC 11168 complete genome; segment 1/6,0,128,66646,66744,60.99,UUCUUAGACCUGUGCAAUGCUAUUUUUAAGCACCGCUUCAGGGUGGGAACACAGCAGAGCACUUGAUUUUAGUGUGUGCCGCAGUUAUCUGGGGAAGGG,AL139074.2/66646-66744,66646-66744,0,98,AL139074.2/66646-66744
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,45566,D49784.1,1,sp|D49784.1|CPSERTRNA Clostridium perfringens genes for tRNA-Ser; scRNA; Orf1 and sodium-coupled branched-chain amino acid carrier.,0,129,399,501,97.02,GAGUUGGGCCCCACGCAAUGGAAACCUGUGAACCUCGUCAGGUCCGGAAGGAAGCAGCGAUAAGCAGUCAUUUUCAUGUGCCGUGGAUACGUCUGGCUUGAGC,D49784.1/399-501 AP003185.1/54642-54744,399-501,0,102,D49784.1/399-501
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz,48868,AE000151.1,1,sp|AE000151.1|ECAE151 Escherichia coli K12 MG1655 section 41 of 400 of the complete genome.,0,130,10906,11005,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,10906-11005,0,99,AE000151.1/10906-11005
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,2470,X01074.1,1,sp|X01074.1|ECRNA45 E. coli 4.5S rRNA gene,0,131,169,268,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,169-268,0,99,X01074.1/169-268
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,2581,M17993.1,1,sp|M17993.1|ECRRKP E.coli 4.5S ribosomal RNA (rRNA) precursor RNA.,0,132,29,124,43.90,CUGUUGGUUCUCCCGCAACGUCACUCUGUUUACCAGGUCAGGUCCGGAAGCCAAGGCAGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,M17993.1/29-124,29-124,0,95,M17993.1/29-124
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,2717,M17994.1,1,sp|M17994.1|ECSRAKA E.coli (MRE 600) 4.5S RNA.,0,133,7,102,44.25,CUGUUGGUUCUCCCGCAACGUCACUCUGUUUACCAGGUCAGGUCCGGAAGCCAAGGCAGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAAGGCC,M17994.1/7-102,7-102,0,95,M17994.1/7-102
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,3196,U82664.1,1,sp|U82664.1|ECU82664 Escherichia coli minutes 9 to 11 genomic sequence.,0,134,55903,56002,83.14,CUGUUGGUUCUCCCGCAACGCUACUCUGUUUACCAGGUCAGGUCCGGAAGGAAGCAGCCAAGGCAGAUGACGCGUGUGCCGGGAUGUAGCUGGCAGGGCC,AE000151.1/10906-11005 AE016756.1/250756-250855 AE016842.1/59881-59782 AE005224.1/9131-9230 AP002551.1/261040-261139 AE008717.1/10281-10380 U82664.1/55903-56002 X01074.1/169-268 AL627266.1/266291-266390,55903-56002,0,99,U82664.1/55903-56002
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,5448,U32175.1,1,sp|U32175.1|HD32175 Haemophilus ducreyi hemolytic cytotoxin HhdA and HhdB precursors (hhdA; hhdB) genes; complete cds.,1,135,5757,5660,68.26,UUAUUGGUUUCUCGCAGCAGAAUUCAGCUUACUUAGUCAGGGCCGGAAGGAAGCAGCUUGGGUUGAAUUUCUGGGUGCCGGGAGUCGCUGGUAAUACC,AE017154.1/180281-180184 U32175.1/5757-5660,5757-5660,0,97,U32175.1/5757-5660
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,5822,U32795.1,1,sp|U32795.1|HI32795 Haemophilus influenzae Rd section 110 of 163 of the complete genome.,0,136,4504,4603,77.44,UUCUCGGUCUCUCGCAACGGUGUCUGGUUUACUCGGUCAGGUCCGGAAGGAAGCAGCCAAAGUCGGAAUUACUGUGUGCCGAGAAGAAGCUGGGAAGGUU,U32795.1/4504-4603,4504-4603,0,99,U32795.1/4504-4603
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,9764,U15684.1,1,sp|U15684.1|LM15684 Listeria monocytogenes signal recognition particle scRNA.,0,137,123,224,94.23,AGGUUGGGUCUUGCGCAAUGGGAACCUUGUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGCAGUGUUCUCAUGUGCCGCGAGUCGCCUGGCCCGAGC,U15684.1/123-224,123-224,0,101,U15684.1/123-224
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,10319,M31830.1,1,sp|M31830.1|LP45SRNA L.pneumophila 4.5S RNA homolog.,0,138,30,129,75.68,CUAUUGGUCCCCUCGCGACGAUAGAUUGUGAACCCCGUCAGGCCCGGAAGGGAGCAGCGGUAGCAGUUGAUGCGGGCGCCGGGGUGUGGCUCUUAGAGUC,M31830.1/30-129,30-129,0,99,M31830.1/30-129
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,12139,D00560.1,1,sp|D00560.1|MCSRNA Mycoplasma capricolum gene for small RNA.,0,139,60,158,51.48,AUUAUAAAGCCGCGAUAAGAAUAACAUCUGAAUGAGUUAGGACCGGAAGGUAGCAGCUAUAAGGAAAAGUGUUCUGUAUUGCGGUUUUUUAUUUGGAGA,D00560.1/60-158,60-158,0,98,D00560.1/60-158
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,12794,U39706.1,1,sp|U39706.1|MG39706 Mycoplasma genitalium section 28 of 51 of the complete genome.,1,140,5921,5830,48.30,UUUAGAACCAUCACAUCAUUAGAGUCGAAUCAUGUCAGGCCAGAAAUGGAGCAGCAUUAAGACUUGUCAGUGAGUGUGAUGGUUUUUUAUUA,U39706.1/5921-5830,5921-5830,0,91,U39706.1/5921-5830
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,13791,AL023596.1,1,sp|AL023596.1|MLCB2407 Mycobacterium leprae cosmid B2407.,0,141,21933,22021,46.68,GGACCCCGCGCGGCGUCUAUCCUGUGAACUCCCCUAGGGCCGGAAGGCAGCAAGGGUCAAUGGGCUCUGUCGGGUGCGCGGGGUCCCCU,AL023596.1/21933-22021 AL583925.1/79016-78928,21933-22021,0,88,AL023596.1/21933-22021
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,13836,AL583925.1,1,sp|AL583925.1|MLEPRTN9 Mycobacterium leprae strain TN complete genome; segment 9/10,1,142,79016,78928,46.68,GGACCCCGCGCGGCGUCUAUCCUGUGAACUCCCCUAGGGCCGGAAGGCAGCAAGGGUCAAUGGGCUCUGUCGGGUGCGCGGGGUCCCCU,AL023596.1/21933-22021 AL583925.1/79016-78928,79016-78928,0,88,AL583925.1/79016-78928
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,13999,X53678.1,1,sp|X53678.1|MM45SRNB M.mycoides 4.5S RNA gene,0,143,96,180,53.01,AACGCCGCGAUAAGAAUAACAUCUGAACGAGUUAGGACCGGAAGGUAGCAGCUAUAAGGAAAAGUGUUCUGUAUUGCGGUUUUUU,X53678.1/96-180,96-180,0,84,X53678.1/96-180
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,14241,U06833.1,1,sp|U06833.1|MP06833 Mycoplasma pulmonis KD735-15 DNA polymerase III (polC) gene; complete cds.,1,144,218,133,50.53,AAUGCCUUUAGAACAAUAACCUCAUAACCCGGUCAGGACAGAAAUGGAGCAUCCGCAUUGAGAAGUGUUGUGUCUUUAGGUCUUUU,U06833.1/218-133 AL445565.1/169581-169496,218-133,0,85,U06833.1/218-133
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,14346,AE000044.2,1,sp|AE000044.2|MPAE44 Mycoplasma pneumoniae M129 section 36 of 63 of the complete genome.,1,145,5928,5836,51.47,UUAGAGCCGUCACAUCAUUACGGUCGAAUCAUGUCAGGCCAGAAAUGGAGCAGCAUUAAGACUAUUUAAUGAGUGUGAUGGUUUUUUAUUGCA,AE000044.2/5928-5836,5928-5836,0,92,AE000044.2/5928-5836
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,14556,AL445565.1,1,sp|AL445565.1|MPULM03 Mycoplasma pulmonis (strain UAB CTIP) complete genome; segment 3/3,1,146,169581,169496,50.53,AAUGCCUUUAGAACAAUAACCUCAUAACCCGGUCAGGACAGAAAUGGAGCAUCCGCAUUGAGAAGUGUUGUGUCUUUAGGUCUUUU,U06833.1/218-133 AL445565.1/169581-169496,169581-169496,0,85,AL445565.1/169581-169496
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,16129,AL022121.1,1,sp|AL022121.1|MTV025 Mycobacterium tuberculosis H37Rv complete genome; segment 155/162,1,147,75384,75284,48.93,CACGGUGGACCCCGCGCGGCGUCUAUCCUGUGAACUCCCCCAGGGCUGGAAGGCAGCAAGGGUCAACGGGCUCUGUCGGGUGCGCGGGGUCCCCUUCAGCC,BX248347.1/38747-38647 AE007179.1/1542-1442 AL022121.1/75384-75284,75384-75284,0,100,AL022121.1/75384-75284
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,17284,AL162755.2,1,sp|AL162755.2|NMA4Z2491 Neisseria meningitidis serogroup A strain Z2491 complete genome; segment 4/7,1,148,146999,146902,64.12,GGCGGGUCUCCCCGCAUGGCAAAUCGGAACACCGGGUCAGGGGCGGAAGCCAGCAGCCCACUCCGGUGCGCCAGUGCCGGGGGUUUGGCCCGCCGCCC,AL162755.2/146999-146902,146999-146902,0,97,AL162755.2/146999-146902
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,18800,X14404.1,1,sp|X14404.1|PA45SHOM Pseudomonas aeruginosa 4.5S RNA homologue,0,149,126,225,94.16,CUGUCGGUCCCCCCGCAACGAUUACCCGUCAACCUGGUCAGGUCCGGAAGGAAGCAGCCACAGCGGGAACAUCGUGUGCCGGGGUGUGGCUGGCGGGGCC,X14404.1/126-225 AE004581.1/9670-9769 M31829.1/126-225 X12644.1/103-202,126-225,0,99,X14404.1/126-225
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,18801,M31829.1,1,sp|M31829.1|PA45SRNA P.aeruginosa 4.5S RNA homolog.,0,150,126,225,94.16,CUGUCGGUCCCCCCGCAACGAUUACCCGUCAACCUGGUCAGGUCCGGAAGGAAGCAGCCACAGCGGGAACAUCGUGUGCCGGGGUGUGGCUGGCGGGGCC,X14404.1/126-225 AE004581.1/9670-9769 M31829.1/126-225 X12644.1/103-202,126-225,0,99,M31829.1/126-225
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,19044,X12644.1,1,sp|X12644.1|PAFFS Pseudomonas aeruginosa ffs gene for 4.5S RNA,0,151,103,202,94.16,CUGUCGGUCCCCCCGCAACGAUUACCCGUCAACCUGGUCAGGUCCGGAAGGAAGCAGCCACAGCGGGAACAUCGUGUGCCGGGGUGUGGCUGGCGGGGCC,X14404.1/126-225 AE004581.1/9670-9769 M31829.1/126-225 X12644.1/103-202,103-202,0,99,X12644.1/103-202
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,20745,AJ237851.1,1,sp|AJ237851.1|PMA237851 Prochlorococcus marinus ddlb (partial); ftsQ; ftsZ; panB and hemN (partial) genes,1,152,3373,3276,60.88,GACUCGGGCCCAUGCGGCUUCGACGCCUAAAUCUGGUCAGGACCGGAAGGUAGCAGCCACAAGGGAUGCUUGAAUCUGGCGUGGAUUCCGGGUCACCU,AE017165.1/76327-76230 AJ237851.1/3373-3276,3373-3276,0,97,AJ237851.1/3373-3276
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,22018,AJ011025.1,1,sp|AJ011025.1|PSP011025 Prochlorococcus sp. ftsZ gene and genes encoding D-alanine-D-alanine ligase; 3-Methyl-2-oxobutanoate hydroxymethyltransferase and oxygen independent coproporphyrinogen III oxidase; partial,1,153,3479,3382,52.10,GACUCGGCCUUUCGCGGUUUUAACGCCCAAACCUGGUCAGGAUCGGAAGGUAGCAGCCACAAGGGAUGCUUGAGGCAGGCGAGAUAACCGAGUCACUU,AJ011025.1/3479-3382 BX572093.1/216574-216477,3479-3382,0,97,AJ011025.1/3479-3382
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,26208,S67588.1,1,sp|S67588.1|S67588 MCS1 RNA [Mycoplasma capricolum; scRNA; 77 nt],0,154,2,77,46.81,CCGCGAUAAGAAUAACAUCUGAAUGAGUUAGGACCGGAAGGUAGCAGCUAUAAGGAAAAGUGUUCUGUAUUGCGGU,S67588.1/2-77,2-77,0,75,S67588.1/2-77
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,26407,S76009.1,1,sp|S76009.1|S76009 4.5S RNA homolog [Mycoplasma pneumoniae; Genomic; 134 nt].,0,155,31,123,50.43,UUAGAGCCGUCACAUCAUUACGGUCGAAUCGUGUCAGGCCAGAAAUGGAGCAGCAUUAAGACUAUUUAAUGAGUGUGAUGGUUUUUUAUUGCA,S76009.1/31-123,31-123,0,92,S76009.1/31-123
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,26973,AL766845.1,1,sp|AL766845.1|SAG766845 Streptococcus agalactiae NEM316 complete genome; segment 3,0,156,74921,74998,54.59,UGGAGCAACAUUUACUCGUGAAGUGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUGCUAAAUGUGUGCUCUUUUU,AL766845.1/74921-74998 AE014209.1/18006-18083,74921-74998,0,77,AL766845.1/74921-74998
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,28285,AL939118.1,1,sp|AL939118.1|SCO939118 Streptomyces coelicolor A3(2) complete genome; segment 15/29,0,157,230080,230166,50.41,GCCCCUCACGCGGCGCUAUCUGACUGAACUCCCCCAGGGCCGGAAGGCAGCAAGGGUAGGUCGGCUCUGGCGGGUGCGUGGGGGGCG,AL939118.1/230080-230166,230080-230166,0,86,AL939118.1/230080-230166
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,28559,AJ489606.1,1,sp|AJ489606.1|SDY489606 Streptococcus dysgalactiae subsp. equisimilis ORF1 (partial); speG gene; ORF2; ORF3 and pgi gene (partial),0,158,801,898,56.13,UAAUAAAAGUGGAGCAACACUUGUGCGUGAAGUGGGUCAGGGGAGGAAUCCAGCAGCCCUAAGCGAUUGUCAGGUGUGUGCUCUUUUUUUGUUACCUU,AJ489606.1/801-898,801-898,0,97,AJ489606.1/801-898
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,30217,AL591782.1,1,sp|AL591782.1|SME591782 Sinorhizobium meliloti 1021 complete chromosome; segment 1/12,0,159,259929,260027,56.84,GGAGGUUGGUGGUGGACGAGCCACUCGCCAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAACGAGCCCCGGCACGGGUCAUCGUGCCAGCCUCCCACC,AL591782.1/259929-260027,259929-260027,0,98,AL591782.1/259929-260027
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,33071,D90912.1,1,sp|D90912.1|SSD912 Synechocystis sp. PCC 6803 DNA; complete genome; section:14/27; 1719644-1848241.,0,160,112591,112688,62.87,GGCUCGGACUCAUGCGAUUACAACGCCCAAAUCUUGUCAGGACCGGAAGGUAGCAGCAAUAAGGGAUGCUUGUGGUAGGCGUGAACUCCGGGCUUCCG,D90912.1/112591-112688,112591-112688,0,97,D90912.1/112591-112688
./cmzasha --no-stderr --filter 150 43.5 Rfam/cm/RF00169.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00169_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00169_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00169.cm (global),/projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz,36552,X12643.1,1,sp|X12643.1|TT45SRNA Thermus thermophilus ffs gene for 4.5S RNA,0,161,106,207,83.31,CCCCCGGUCCAGCGCGGCGGGCCAGGCGUGAACCGGGUCAGGUCCGGAAGGAAGCAGCCCUAAGCGCCUCGGUCCGGGCGCCGCUGGGAAGCCGGGGGCGCU,X12643.1/106-207,106-207,0,101,X12643.1/106-207



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)