Mercurial > repos > public-health-bioinformatics > pick_plasmids_containing_genes

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"planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit e732b47aa50e35cd4cb70df263d21c5987cae697"
author public-health-bioinformatics
date Thu, 19 Dec 2019 18:22:33 -0500
parents 62019f5116f8
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62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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1 #FILE SEQUENCE START END STRAND GENE COVERAGE COVERAGE_MAP GAPS %COVERAGE %IDENTITY DATABASE ACCESSION PRODUCT RESISTANCE
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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2 #FILE SEQUENCE START END STRAND GENE COVERAGE COVERAGE_MAP GAPS %COVERAGE %IDENTITY DATABASE ACCESSION PRODUCT RESISTANCE
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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3 plasmid_1550 SRR9113487.fasta|65_length=4058_depth=2.47x 2638 3513 - CTX-M-15 1-876/876 =============== 0/0 100.00 100.00 card AY044436:1436-2312 CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family cephalosporin
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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4 plasmid_1550 SRR9113487.fasta|77_length=2186_depth=3.14x 1 442 - catB3 1-442/633 ===========.... 0/0 69.83 100.00 card JX101693.1:58201-58834 catB3 is a plasmid or chromosome-encoded variant of the cat gene found in Salmonella typhimurium Acinetobacter baumannii and Escherichia coli phenicol
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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5 plasmid_1550 SRR9113487.fasta|77_length=2186_depth=3.14x 580 1410 - OXA-1 1-831/831 =============== 0/0 100.00 100.00 card JN420336.1:1400-2231 OXA-1 is a beta-lactamase found in E. coli penam/cephalosporin
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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6 plasmid_1550 SRR9113487.fasta|77_length=2186_depth=3.14x 1475 2124 - OXA-368 2072-2721/2721 ...........==== 0/0 23.89 99.08 card KT736121.1:1-2722 OXA-368 is a beta-lactamase found in Aeromonas sobria. From the Lahey list of OXA beta-lactamases. cephalosporin/penam
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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7 #FILE SEQUENCE START END STRAND GENE COVERAGE COVERAGE_MAP GAPS %COVERAGE %IDENTITY DATABASE ACCESSION PRODUCT RESISTANCE
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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8 plasmid_2719 SRR9113487.fasta|53_length=9674_depth=5.42x 496 1308 + NDM-5 1-813/813 =============== 0/0 100.00 100.00 card JN104597:115-928 New Delhi beta-lactamase NDM-5. cephamycin/penam/cephalosporin/carbapenem
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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9 plasmid_2719 SRR9113487.fasta|53_length=9674_depth=5.42x 1312 1677 + determinant_of_bleomycin_resistance 1-366/366 =============== 0/0 100.00 100.00 card KC503911.1:9884-10250 A novel bleomycin resistance protein encoded by a metallo-beta-lactamase-associated ble gene. Expression of BRP(MBL) confers resistance to bleomycin and bleomycin-like antibiotics in Enterobacteriaceae and Acinetobacter where it is co-expressed with an MBL and controlled by the same promoter region. glycopeptide
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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10 plasmid_2719 SRR9113487.fasta|53_length=9674_depth=5.42x 5621 6460 - sul1 1-840/840 =============== 0/0 100.00 100.00 card JF969163:1054-1894 Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. sulfonamide
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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11 plasmid_2719 SRR9113487.fasta|53_length=9674_depth=5.42x 6965 7744 - aadA2 1-780/780 =============== 0/0 100.00 99.87 card AF156486:5013-5793 aadA2 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in K. pneumoniae Salmonella spp. Corynebacterium glutamicum C. freundii and Aeromonas spp. aminoglycoside
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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12 plasmid_2719 SRR9113487.fasta|53_length=9674_depth=5.42x 8164 8661 - dfrA12 1-498/498 =============== 0/0 100.00 100.00 card GU585907.1:21606-22104 dfrA12 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae diaminopyrimidine
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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13 plasmid_2719 SRR9113487.fasta|53_length=9674_depth=5.42x 8662 8910 - AAC(6')-Ib7 1-249/980 ====........... 0/0 25.41 98.80 card Y11946.1:1-981 AAC(6')-Ib7 is a plasmid-encoded aminoglycoside acetyltransferase in E. cloacae and C. freundii aminoglycoside
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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14 #FILE SEQUENCE START END STRAND GENE COVERAGE COVERAGE_MAP GAPS %COVERAGE %IDENTITY DATABASE ACCESSION PRODUCT RESISTANCE
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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15 plasmid_739 SRR9113487.fasta|58_length=8070_depth=5.28x 70 972 + mphA 1-903/906 =============== 0/0 99.67 100.00 card D16251.1:1626-2532 The mphA gene encodes for resistance enzyme MPH(2')-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2'-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. macrolide
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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16 plasmid_739 SRR9113487.fasta|58_length=8070_depth=5.28x 5102 5962 + TEM-1 1-861/861 =============== 0/0 100.00 99.88 card AL513383:161911-162772 TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. penam/cephalosporin/penem/monobactam
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
public-health-bioinformatics
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17 plasmid_739 SRR9113487.fasta|58_length=8070_depth=5.28x 6132 6887 + rmtB 1-756/756 =============== 0/0 100.00 100.00 card AM886293.1:116480-117236 RmtB is a 16S rRNA methyltransferase that targets mature or nearly mature 30S subunits. It transfers a methyl group from S-adenosyl-L-methionine to N7-G1405 of the 16S rRNA an aminoglycoside binding site. aminoglycoside
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
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18 #FILE SEQUENCE START END STRAND GENE COVERAGE COVERAGE_MAP GAPS %COVERAGE %IDENTITY DATABASE ACCESSION PRODUCT RESISTANCE
62019f5116f8 "planemo upload for repository https://github.com/public-health-bioinformatics/galaxy_tools/tree/master/tools/pick_plasmids_containing_genes commit af16cdb29dcdc9ad2ff1effb5cf4e23a8c98a764"
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19 #FILE SEQUENCE START END STRAND GENE COVERAGE COVERAGE_MAP GAPS %COVERAGE %IDENTITY DATABASE ACCESSION PRODUCT RESISTANCE