... | @@ -12,7 +12,7 @@ For a detailed explanation of the reports please see below: |
... | @@ -12,7 +12,7 @@ For a detailed explanation of the reports please see below: |
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The AMR report contains the prediction of antimicrobial resistance genes as well as mobile genetic elements (phage + plasmid) Within the report the first columns contain the Contig name, Contig ID (as given by PathoFact), ORF name and the ORF ID (as given by PathoFact).
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The AMR report contains the prediction of antimicrobial resistance genes as well as mobile genetic elements (phage + plasmid) Within the report the first columns contain the Contig name, Contig ID (as given by PathoFact), ORF name and the ORF ID (as given by PathoFact).
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| Contig | Contig_ID | ORF | ORF_ID | ARG | ARG_SNPs | AMR_category | AMR_sub_class | Resistance_mechanism | Database | MGE_prediction |
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| Contig | Contig_ID | ORF | ORF_ID | ARG | ARG_SNPs | AMR_category | AMR_sub_class | Resistance_mechanism | Database | MGE_prediction |
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| :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: | :---: |
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|:---:| :---:| :---:| :---:| :---:| :---:| :---:| :---:| :---: | :---:| :---:|
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| contig_1 | 0000000001 | 1_1 | 00000000001 | vanRD | n/a | glycopeptide | glycopeptide antibiotic | antibiotic target alteration | DeepARG/RGI | plasmid |
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| contig_1 | 0000000001 | 1_1 | 00000000001 | vanRD | n/a | glycopeptide | glycopeptide antibiotic | antibiotic target alteration | DeepARG/RGI | plasmid |
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| contig_1 | 0000000001 | 1_2 | 00000000002 | - | - | - | - | - | - | chromosome |
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| contig_1 | 0000000001 | 1_2 | 00000000002 | - | - | - | - | - | - | chromosome |
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| contig_2 | 0000000002 | 2_1 | 00000000003 | gyrA | S81L | multidrug | fluoroquinolone antibiotic;nybomycin | antibiotic target alteration | RGI | chromosome |
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| contig_2 | 0000000002 | 2_1 | 00000000003 | gyrA | S81L | multidrug | fluoroquinolone antibiotic;nybomycin | antibiotic target alteration | RGI | chromosome |
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