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 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz,5206,AC006590.11,1,sp|AC006590.11|AC006590 Drosophila melanogaster; chromosome 2L; region 36E-; BAC clone BACR13N02; complete sequence.,0,0,37991,38059,13.99,GCAAAUUGAGGUAGUAGGUUGUAUAGUAGUAAUUACACAUCAUACUAUACAAUGUGCUAGCUUUCUUUG,AC008184.4/115512-115580 AE003659.2/54903-54971 AC006590.11/37991-38059,37991-38059,0,68,AC006590.11/37991-38059
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz,5562,AC008184.4,1,sp|AC008184.4|AC008184 Drosophila melanogaster; chromosome 2L; region 36E5-36F2; BAC clone BACR04D05; complete sequence.,0,1,115512,115580,13.99,GCAAAUUGAGGUAGUAGGUUGUAUAGUAGUAAUUACACAUCAUACUAUACAAUGUGCUAGCUUUCUUUG,AC008184.4/115512-115580 AE003659.2/54903-54971 AC006590.11/37991-38059,115512-115580,0,68,AC008184.4/115512-115580
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz,6356,AC084471.1,1,sp|AC084471.1|AC084471 Caenorhabditis briggsae cosmid CB048J20; complete sequence.,1,2,10992,10920,39.29,UACGGUGAGGUAGUAGGUUGUAUAGUUUAGAAUAUUACUCUCGGUGAACUAUGCAAGUUUCUACCUCACCGAA,AF210771.1/1883-1955 AC084471.1/10992-10920,10992-10920,0,72,AC084471.1/10992-10920
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz,7675,AE003659.2,1,sp|AE003659.2|AE003659 Drosophila melanogaster chromosome 2L section 68 of 83 of the complete sequence.,0,3,54903,54971,13.99,GCAAAUUGAGGUAGUAGGUUGUAUAGUAGUAAUUACACAUCAUACUAUACAAUGUGCUAGCUUUCUUUG,AC008184.4/115512-115580 AE003659.2/54903-54971 AC006590.11/37991-38059,54903-54971,0,68,AE003659.2/54903-54971
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz,25803,AF210771.1,1,sp|AF210771.1|AF210771 Caenorhabditis briggsae let-7 RNA gene; complete sequence.,0,4,1883,1955,39.29,UACGGUGAGGUAGUAGGUUGUAUAGUUUAGAAUAUUACUCUCGGUGAACUAUGCAAGUUUCUACCUCACCGAA,AF210771.1/1883-1955 AC084471.1/10992-10920,1883-1955,0,72,AF210771.1/1883-1955
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz,32203,AF274345.1,1,sp|AF274345.1|AF274345 Caenorhabditis elegans let-7 RNA gene; complete sequence.,0,5,1758,1830,41.80,UCCGGUGAGGUAGUAGGUUGUAUAGUUUGGAAUAUUACCACCGGUGAACUAUGCAAUUUUCUACCUUACCGGA,Z70203.2/12451-12379 AF274345.1/1758-1830,1758-1830,0,72,AF274345.1/1758-1830
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/inv02.dat.fasta.gz,43206,Z70203.2,1,sp|Z70203.2|CEC05G5 Caenorhabditis elegans cosmid C05G5,1,6,12451,12379,41.80,UCCGGUGAGGUAGUAGGUUGUAUAGUUUGGAAUAUUACCACCGGUGAACUAUGCAAUUUUCUACCUUACCGGA,Z70203.2/12451-12379 AF274345.1/1758-1830,12451-12379,0,72,Z70203.2/12451-12379
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/mus.dat.fasta.gz,6187,AC122451.3,1,sp|AC122451.3|AC122451 Mus musculus clone RP24-252G15; complete sequence.,1,7,48611,48536,52.34,CCGGGUUGAGGUAGUAGGUUGUAUGGUUUAGAGUUACACCCUGGGAGUUAACUGUACAACCUUCUAGCUUUCCUUG,AP001667.1/186549-186624 AP000962.2/118093-118168 AC122451.3/48611-48536,48611-48536,0,75,AC122451.3/48611-48536
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/mus.dat.fasta.gz,25251,AL672180.11,1,sp|AL672180.11|AL672180 Mouse DNA sequence from clone RP23-419G22 on chromosome X,0,8,2218,2298,49.79,GUGGGAUGAGGUAGUAGAUUGUAUAGUUUUAGGGUCAUACCCCAUCUUGGAGAUAACUAUACAGUCUACUGUCUUUCCCAC,AL592046.7/22669-22589 AL672180.11/2218-2298,3094-3182 2218-2298,0,80,AL672180.11/2218-2298
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/mus.dat.fasta.gz,25251,AL672180.11,1,sp|AL672180.11|AL672180 Mouse DNA sequence from clone RP23-419G22 on chromosome X,0,9,3094,3182,37.33,CUGGGGUGAGGUAGUAAGUUGUAUUGUUGUGGGGUAGGGAUUUUAGGCCCCAGUAAGAAGAUAACUAUACAACUUACUACUUUCCUUGG,AL672180.11/3094-3182,3094-3182 2218-2298,0,88,AL672180.11/3094-3182
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz,24470,AL935208.8,1,sp|AL935208.8|AL935208 Zebrafish DNA sequence from clone CH211-241N17,0,10,111380,111468,40.35,CUGGGUUGAGGUAGUUGUUUGUACAGUUUUUAGGGUCUGUUAUUCUGCCCUGUUAAGGAGCUAACUGUACAGACUACUGCCUUGCCCAG,AL935208.8/111380-111468,111380-111468,0,88,AL935208.8/111380-111468
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz,36468,BX005256.11,1,sp|BX005256.11|BX005256 Zebrafish DNA sequence from clone DKEY-79D12,1,11,482,404,32.90,GCGGUGUGAGGUAGUUGGUUGUAUGGUUUUGCAUAAUAAACAGCCCGGAGUUAACUGUACAACCUUCUAGCUUUCCCUG,BX005256.11/482-404,482-404,0,78,BX005256.11/482-404
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum01.dat.fasta.gz,9510,AC002482.1,1,sp|AC002482.1|AC002482 Human BAC clone CTA-208O3; complete sequence.,1,12,31661,31578,19.10,AGAAGUACAGGUAGUAGGUUGCGUAGUUUGAGGACAGGGAUUUUAUCCACAAGGAGGUAAUUAUAUGACCUGCUGCUACCUUUC,AC002482.1/31661-31578 AC011193.3/111150-111233,31661-31578,0,83,AC002482.1/31661-31578
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz,3596,AC011193.3,1,sp|AC011193.3|AC011193 Homo sapiens chromosome 17; clone RP11-521P1; complete sequence.,0,13,111150,111233,19.10,AGAAGUACAGGUAGUAGGUUGCGUAGUUUGAGGACAGGGAUUUUAUCCACAAGGAGGUAAUUAUAUGACCUGCUGCUACCUUUC,AC002482.1/31661-31578 AC011193.3/111150-111233,111150-111233,0,83,AC011193.3/111150-111233
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz,5062,AC018755.3,1,sp|AC018755.3|AC018755 Homo sapiens chromosome 19; BAC BC330783 (CIT-HSPC_470E3); complete sequence.,0,14,119936,120011,42.88,CCGGGCUGAGGUAGGAGGUUGUAUAGUUGAGGAGGACACCCAAGGAGAUCACUAUACGGCCUCCUAGCUUUCCCCA,AC018755.3/119936-120011,119936-120011,0,75,AC018755.3/119936-120011
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz,7302,AC048341.22,1,sp|AC048341.22|AC048341 Homo sapiens 12 BAC RP11-631N16 (Roswell Park Cancer Institute Human BAC Library) complete sequence.,0,15,3536,3622,41.14,CCUGGCUGAGGUAGUAGUUUGUGCUGUUGGUCGGGUUGUGACAUUGCCCGCUGUGGAGAUAACUGCGCAAGCUACUGCCUUGCUAGU,AC048341.22/3536-3622,3536-3622,0,86,AC048341.22/3536-3622
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz,404,AC092045.2,1,sp|AC092045.2|AC092045 Homo sapiens chromosome 3 clone RP11-168J18; complete sequence.,0,16,144495,144582,54.83,CCAGGCUGAGGUAGUAGUUUGUACAGUUUGAGGGUCUAUGAUACCACCCGGUACAGGAGAUAACUGUACAGGCCACUGCCUUGCCAGG,AC094021.2/47340-47253 AC092045.2/144495-144582,144495-144582,0,87,AC092045.2/144495-144582
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz,1623,AC094021.2,1,sp|AC094021.2|AC094021 Homo sapiens chromosome 3 clone RP11-801L18; complete sequence.,1,17,47340,47253,54.83,CCAGGCUGAGGUAGUAGUUUGUACAGUUUGAGGGUCUAUGAUACCACCCGGUACAGGAGAUAACUGUACAGGCCACUGCCUUGCCAGG,AC094021.2/47340-47253 AC092045.2/144495-144582,47340-47253,0,87,AC094021.2/47340-47253
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum07.dat.fasta.gz,3734,AF480570.1,1,sp|AF480570.1|AF480570 Homo sapiens miR-98-precursor-X micro RNA; complete sequence.,0,18,1,79,17.61,GUGAGGUAGUAAGUUGUAUUGUUGUGGGGUAGGGAUAUUAGGCCCCAAUUAGAAGAUAACUAUACAACUUACUACUUUC,AF480570.1/1-79,1-79,0,78,AF480570.1/1-79
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,702,AL158152.18,1,sp|AL158152.18|AL158152 Human DNA sequence from clone RP11-2B6 on chromosome 9q22.2-31.1,0,19,37900,37981,52.65,GUGGGAUGAGGUAGUAGGUUGUAUAGUUUUAGGGUCACACCCACCACUGGGAGAUAACUAUACAAUCUACUGUCUUUCCUAA,AL158152.18/37900-37981,38291-38377 37900-37981 40779-40863,0,81,AL158152.18/37900-37981
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,702,AL158152.18,1,sp|AL158152.18|AL158152 Human DNA sequence from clone RP11-2B6 on chromosome 9q22.2-31.1,0,20,38291,38377,53.59,UCAGAGUGAGGUAGUAGAUUGUAUAGUUGUGGGGUAGUGAUUUUACCCUGUUCAGGAGAUAACUAUACAAUCUAUUGCCUUCCCUGA,AL158152.18/38291-38377,38291-38377 37900-37981 40779-40863,0,86,AL158152.18/38291-38377
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,702,AL158152.18,1,sp|AL158152.18|AL158152 Human DNA sequence from clone RP11-2B6 on chromosome 9q22.2-31.1,0,21,40779,40863,52.21,CUAGGAAGAGGUAGUAGGUUGCAUAGUUUUAGGGCAGGGAUUUUGCCCACAAGGAGGUAACUAUACGACCUGCUGCCUUUCUUAG,AL158152.18/40779-40863,38291-38377 37900-37981 40779-40863,0,84,AL158152.18/40779-40863
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,1186,AL162595.17,1,sp|AL162595.17|AL162595 Human DNA sequence from clone RP5-1061H20 on chromosome 1,1,22,20369,20285,17.57,CUAGGAAGAGGCAACAGGUUGCAUAGUUUGAGGGCAGGCAUUUUUCCCACUUAGGGGUAACCGUAUGCUCUGCUGCCUGUCUUAG,AL162595.17/20369-20285,20369-20285,0,84,AL162595.17/20369-20285
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,4909,AL592046.7,1,sp|AL592046.7|AL592046 Human DNA sequence from clone RP11-155O24 on chromosome X,1,23,22669,22589,49.79,GUGGGAUGAGGUAGUAGAUUGUAUAGUUUUAGGGUCAUACCCCAUCUUGGAGAUAACUAUACAGUCUACUGUCUUUCCCAC,AL592046.7/22669-22589 AL672180.11/2218-2298,21722-21634 22669-22589,0,80,AL592046.7/22669-22589
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,4909,AL592046.7,1,sp|AL592046.7|AL592046 Human DNA sequence from clone RP11-155O24 on chromosome X,1,24,21722,21634,40.89,CCAGGGUGAGGUAGUAAGUUGUAUUGUUGUGGGGUAGGGAUAUUAGGCCCCAAUUAGAAGAUAACUAUACAACUUACUACUUUCCCUGG,AL592046.7/21722-21634,21722-21634 22669-22589,0,88,AL592046.7/21722-21634
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,6765,AP000962.2,1,sp|AP000962.2|AP000962 Homo sapiens genomic DNA; chromosome 21q21.1-q21.2; clone:B821P16; LL56-APP region.,0,25,118093,118168,52.34,CCGGGUUGAGGUAGUAGGUUGUAUGGUUUAGAGUUACACCCUGGGAGUUAACUGUACAACCUUCUAGCUUUCCUUG,AP001667.1/186549-186624 AP000962.2/118093-118168 AC122451.3/48611-48536,118093-118168,0,75,AP000962.2/118093-118168
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,6963,AP001359.4,1,sp|AP001359.4|AP001359 Homo sapiens genomic DNA; chromosome 11q clone:RP11-820L6; complete sequences.,1,26,114553,114478,47.81,CCAGGUUGAGGUAGUAGGUUGUAUAGUUUAGAAUUACAUCAAGGGAGAUAACUGUACAGCCUCCUAGCUUUCCUUG,AP001359.4/114553-114478,114553-114478,0,75,AP001359.4/114553-114478
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz,7108,AP001667.1,1,sp|AP001667.1|AP001667 Homo sapiens genomic DNA; chromosome 21q; section 11/105.,0,27,186549,186624,52.34,CCGGGUUGAGGUAGUAGGUUGUAUGGUUUAGAGUUACACCCUGGGAGUUAACUGUACAACCUUCUAGCUUUCCUUG,AP001667.1/186549-186624 AP000962.2/118093-118168 AC122451.3/48611-48536,186549-186624,0,75,AP001667.1/186549-186624
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum16.dat.fasta.gz,2685,AL049853.1,1,sp|AL049853.1|HS695O20B Human DNA sequence from clone RP4-695O20 on chromosome 22q13.1-13.33,1,28,18009,17931,50.91,UUGGGGUGAGGUAGUAGGUUGUAUAGUUUGGGGCUCUGCCCUGCUAUGGGAUAACUAUACAAUCUACUGUCUUUCCUGA,AL049853.1/18009-17931,18009-17931 17070-16986,0,78,AL049853.1/18009-17931
./cmzasha --no-stderr --filter 150 13 Rfam/cm/RF00027.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00027_greedy_forwardinf_cfsqp_cycling_Ecoli_0MM.bin hmm data/TryAllCm/RF00027_fwdinf_hmmtype1_advance_copy.bin ,Rfam/cm/RF00027.cm (global),/projects/bio/zasha/seqs/embl/hum16.dat.fasta.gz,2685,AL049853.1,1,sp|AL049853.1|HS695O20B Human DNA sequence from clone RP4-695O20 on chromosome 22q13.1-13.33,1,29,17070,16986,53.97,GCGGGGUGAGGUAGUAGGUUGUGUGGUUUCAGGGCAGUGAUGUUGCCCCUCGGAAGAUAACUAUACAACCUACUGCCUUCCCUGA,AL049853.1/17070-16986,18009-17931 17070-16986,0,84,AL049853.1/17070-16986



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)