Mercurial > repos > iuc > hamronize_summarize
annotate test-data/hamronized_rgi.tsv @ 5:88045b4d5597 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit b49fc153425676a82e77dec090676403112bcbe6
| author | iuc |
|---|---|
| date | Tue, 05 Mar 2024 19:47:21 +0000 |
| parents | ef76d74a7171 |
| children |
| rev | line source |
|---|---|
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0
ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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1 input_file_name gene_symbol gene_name reference_database_id reference_database_version reference_accession analysis_software_name analysis_software_version sequence_identity input_sequence_id input_protein_start input_protein_stop input_gene_start input_gene_stop reference_protein_start reference_protein_stop reference_gene_start reference_gene_stop strand_orientation coverage_depth coverage_percentage coverage_ratio reference_gene_length reference_protein_length input_gene_length input_protein_length drug_class antimicrobial_agent resistance_mechanism |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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2 rgi_report oqxA resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3003922 rgi rgi_v1 100.0 NODE_1_length_803036_cov_42.265_33 30758 31933 + 100.0 fluoroquinolone antibiotic; glycylcycline; tetracycline antibiotic; diaminopyrimidine antibiotic; nitrofuran antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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3 rgi_report oqxB resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3003923 rgi rgi_v1 99.52 NODE_1_length_803036_cov_42.265_34 31957 35109 + 100.0 fluoroquinolone antibiotic; glycylcycline; tetracycline antibiotic; diaminopyrimidine antibiotic; nitrofuran antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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4 rgi_report emrR major facilitator superfamily (MFS) antibiotic efflux pump CARD card_v1 3000516 rgi rgi_v1 92.57 NODE_1_length_803036_cov_42.265_80 79380 79910 + 100.0 fluoroquinolone antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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5 rgi_report Klebsiella pneumoniae KpnG major facilitator superfamily (MFS) antibiotic efflux pump CARD card_v1 3004588 rgi rgi_v1 99.74 NODE_1_length_803036_cov_42.265_81 80036 81208 + 100.0 macrolide antibiotic; fluoroquinolone antibiotic; aminoglycoside antibiotic; carbapenem; cephalosporin; penam; peptide antibiotic; penem antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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6 rgi_report Klebsiella pneumoniae KpnH major facilitator superfamily (MFS) antibiotic efflux pump CARD card_v1 3004597 rgi rgi_v1 94.02 NODE_1_length_803036_cov_42.265_82 81224 82762 + 100.0 macrolide antibiotic; fluoroquinolone antibiotic; aminoglycoside antibiotic; carbapenem; cephalosporin; penam; peptide antibiotic; penem antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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7 rgi_report mdtB resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3000793 rgi rgi_v1 90.1 NODE_3_length_454317_cov_40.2449_14 17656 20778 + 100.0 aminocoumarin antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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8 rgi_report mdtC resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3000794 rgi rgi_v1 91.41 NODE_3_length_454317_cov_40.2449_15 20779 23856 + 100.0 aminocoumarin antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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9 rgi_report baeR resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3000828 rgi rgi_v1 90.83 NODE_3_length_454317_cov_40.2449_18 26745 27467 + 100.0 aminoglycoside antibiotic; aminocoumarin antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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10 rgi_report acrD resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3000491 rgi rgi_v1 90.94 NODE_3_length_454317_cov_40.2449_285 330238 333351 + 100.0 aminoglycoside antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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11 rgi_report FosA6 fosfomycin thiol transferase CARD card_v1 3004111 rgi rgi_v1 97.84 NODE_4_length_367278_cov_42.3139_12 14037 14456 + 100.0 fosfomycin antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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12 rgi_report Klebsiella pneumoniae acrA resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3004041 rgi rgi_v1 95.24 NODE_6_length_262587_cov_42.4347_106 86156 87349 + 99.75 fluoroquinolone antibiotic; cephalosporin; glycylcycline; penam; tetracycline antibiotic; rifamycin antibiotic; phenicol antibiotic; triclosan antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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13 rgi_report acrB resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3000216 rgi rgi_v1 91.52 NODE_6_length_262587_cov_42.4347_107 87372 90518 + 99.9 fluoroquinolone antibiotic; cephalosporin; glycylcycline; penam; tetracycline antibiotic; rifamycin antibiotic; phenicol antibiotic; triclosan antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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14 rgi_report Escherichia coli ampH beta-lactamase ampC-type beta-lactamase CARD card_v1 3004612 rgi rgi_v1 85.71 NODE_6_length_262587_cov_42.4347_234 216120 217280 + 100.26 cephalosporin; penam antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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15 rgi_report msbA ATP-binding cassette (ABC) antibiotic efflux pump CARD card_v1 3003950 rgi rgi_v1 92.78 NODE_8_length_247415_cov_40.5207_219 227800 229548 - 100.0 nitroimidazole antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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16 rgi_report CRP resistance-nodulation-cell division (RND) antibiotic efflux pump CARD card_v1 3000518 rgi rgi_v1 99.05 NODE_9_length_203843_cov_42.4911_20 15303 15935 + 100.0 macrolide antibiotic; fluoroquinolone antibiotic; penam antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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17 rgi_report PmrF pmr phosphoethanolamine transferase CARD card_v1 3003578 rgi rgi_v1 83.69 NODE_9_length_203843_cov_42.4911_123 130217 131200 - 101.55 peptide antibiotic antibiotic target alteration |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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18 rgi_report marA resistance-nodulation-cell division (RND) antibiotic efflux pump; General Bacterial Porin with reduced permeability to beta-lactams CARD card_v1 3000263 rgi rgi_v1 92.74 NODE_11_length_157792_cov_39.2115_112 108413 108787 + 97.64 fluoroquinolone antibiotic; monobactam; carbapenem; cephalosporin; glycylcycline; cephamycin; penam; tetracycline antibiotic; rifamycin antibiotic; phenicol antibiotic; triclosan; penem antibiotic efflux; reduced permeability to antibiotic |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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19 rgi_report SHV-11 SHV beta-lactamase CARD card_v1 3001070 rgi rgi_v1 100.0 NODE_11_length_157792_cov_39.2115_132 128890 129750 + 100.0 carbapenem; cephalosporin; penam antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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20 rgi_report CBP-1 CBP beta-lactamase CARD card_v1 3004764 rgi rgi_v1 100.0 NODE_19_length_86672_cov_43.8582_38 39587 39811 - 24.03 penam antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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21 rgi_report Escherichia coli mdfA major facilitator superfamily (MFS) antibiotic efflux pump CARD card_v1 3001328 rgi rgi_v1 85.61 NODE_21_length_66123_cov_41.3566_52 60858 62090 + 100.0 tetracycline antibiotic; benzalkonium chloride; rhodamine antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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22 rgi_report Klebsiella pneumoniae KpnE major facilitator superfamily (MFS) antibiotic efflux pump CARD card_v1 3004580 rgi rgi_v1 99.17 NODE_27_length_37761_cov_37.6839_21 25311 25673 + 100.0 macrolide antibiotic; aminoglycoside antibiotic; cephalosporin; tetracycline antibiotic; peptide antibiotic; rifamycin antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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23 rgi_report Klebsiella pneumoniae KpnF major facilitator superfamily (MFS) antibiotic efflux pump CARD card_v1 3004583 rgi rgi_v1 100.0 NODE_27_length_37761_cov_37.6839_22 25660 25989 + 100.0 macrolide antibiotic; aminoglycoside antibiotic; cephalosporin; tetracycline antibiotic; peptide antibiotic; rifamycin antibiotic antibiotic efflux |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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24 rgi_report AAC(3)-IId AAC(3) CARD card_v1 3004623 rgi rgi_v1 100.0 NODE_39_length_11164_cov_23.0187_6 4569 5429 + 100.0 aminoglycoside antibiotic antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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25 rgi_report rmtC 16S rRNA methyltransferase (G1405) CARD card_v1 3000861 rgi rgi_v1 100.0 NODE_40_length_7360_cov_24.8738_6 6358 7203 - 100.0 aminoglycoside antibiotic antibiotic target alteration |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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26 rgi_report NDM-1 NDM beta-lactamase CARD card_v1 3000589 rgi rgi_v1 100.0 NODE_44_length_4295_cov_23.2123_1 301 1113 + 100.0 carbapenem; cephalosporin; cephamycin; penam antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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27 rgi_report BRP(MBL) Bleomycin resistant protein CARD card_v1 3001205 rgi rgi_v1 100.0 NODE_44_length_4295_cov_23.2123_2 1222 1482 + 71.07 glycopeptide antibiotic antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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28 rgi_report DHA-7 DHA beta-lactamase CARD card_v1 3002136 rgi rgi_v1 100.0 NODE_44_length_4295_cov_23.2123_3 1846 2862 - 89.18 cephalosporin; cephamycin antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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29 rgi_report CTX-M-15 CTX-M beta-lactamase CARD card_v1 3001878 rgi rgi_v1 100.0 NODE_47_length_3813_cov_27.9457_4 2763 3638 - 100.0 cephalosporin antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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30 rgi_report OXA-1 OXA beta-lactamase CARD card_v1 3001396 rgi rgi_v1 100.0 NODE_51_length_1731_cov_22.5767_1 196 1026 + 100.0 cephalosporin; penam antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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31 rgi_report catB3 chloramphenicol acetyltransferase (CAT) CARD card_v1 3002676 rgi rgi_v1 100.0 NODE_51_length_1731_cov_22.5767_2 1164 1712 + 86.67 phenicol antibiotic antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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32 rgi_report AAC(6')-Ib-cr AAC(6') CARD card_v1 3002547 rgi rgi_v1 95.45 NODE_54_length_1272_cov_25.1921_2 1130 1270 + 23.62 fluoroquinolone antibiotic; aminoglycoside antibiotic antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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33 rgi_report sul1 sulfonamide resistant sul CARD card_v1 3000410 rgi rgi_v1 100.0 NODE_57_length_1134_cov_34.8908_1 25 864 - 100.0 sulfonamide antibiotic antibiotic target replacement |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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34 rgi_report AAC(6')-Ib10 AAC(6') CARD card_v1 3002581 rgi rgi_v1 100.0 NODE_69_length_625_cov_55.4398_1 63 623 - 91.63 aminoglycoside antibiotic antibiotic inactivation |
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ef76d74a7171
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hamronization commit 17562209ea2b5b8b28f229a5c305e468b04be58e"
iuc
parents:
diff
changeset
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35 rgi_report AAC(6')-Ib-cr AAC(6') CARD card_v1 3002547 rgi rgi_v1 100.0 NODE_185_length_335_cov_33.8077_1 172 333 + 27.14 fluoroquinolone antibiotic; aminoglycoside antibiotic antibiotic inactivation |