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annotate amrfinderplus/test-data/test_both.expected @ 5:b836150ca6aa

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author estrain
date Fri, 06 Mar 2020 10:58:39 -0500
parents 6cab26b67987
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estrain@4 1 Protein identifier Contig id Start Stop Strand Gene symbol Sequence name Scope Element type Element subtype Class Subclass Method Target length Reference sequence length % Coverage of reference sequence % Identity to reference sequence Alignment length Accession of closest sequence Name of closest sequence HMM id HMM description
estrain@4 2 blaTEM-156 contig01 101 961 + blaTEM-156 class A beta-lactamase TEM-156 core AMR AMR BETA-LACTAM BETA-LACTAM ALLELEP 286 286 100.00 100.00 286 WP_061158039.1 class A beta-lactamase TEM-156 NF000531.2 TEM family class A beta-lactamase
estrain@4 3 blaPDC-114_blast contig02 1 1191 + blaPDC PDC family class C beta-lactamase core AMR AMR BETA-LACTAM CEPHALOSPORIN BLASTP 397 397 100.00 99.75 397 WP_061189306.1 class C beta-lactamase PDC-114 NF000422.6 PDC family class C beta-lactamase
estrain@4 4 blaOXA-436_partial contig03 101 802 + blaOXA OXA-48 family class D beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM PARTIALP 233 265 87.92 100.00 233 WP_058842180.1 OXA-48 family carbapenem-hydrolyzing class D beta-lactamase OXA-436 NF000387.2 OXA-48 family class D beta-lactamase
estrain@4 5 vanG contig04 101 1147 + vanG D-alanine--D-serine ligase VanG core AMR AMR GLYCOPEPTIDE VANCOMYCIN EXACTP 349 349 100.00 100.00 349 WP_063856695.1 D-alanine--D-serine ligase VanG NF000091.3 D-alanine--D-serine ligase VanG
estrain@4 6 NA contig08 101 700 + blaTEM TEM family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM PARTIAL_CONTIG_ENDX 200 286 69.93 100.00 200 WP_061158039.1 class A beta-lactamase TEM-156 NF000531.2 TEM family class A beta-lactamase
estrain@4 7 aph3pp-Ib_partial_5p_neg contig09 1 675 - aph(3'')-Ib aminoglycoside O-phosphotransferase APH(3'')-Ib core AMR AMR AMINOGLYCOSIDE STREPTOMYCIN PARTIAL_CONTIG_ENDP 225 275 81.82 99.56 225 WP_109545041.1 aminoglycoside O-phosphotransferase APH(3'')-Ib NF032895.1 aminoglycoside O-phosphotransferase APH(3'')-Ib
estrain@4 8 sul2_partial_3p_neg contig09 715 1377 - sul2 sulfonamide-resistant dihydropteroate synthase Sul2 core AMR AMR SULFONAMIDE SULFONAMIDE PARTIAL_CONTIG_ENDP 221 271 81.55 100.00 221 WP_001043265.1 sulfonamide-resistant dihydropteroate synthase Sul2 NF000295.1 sulfonamide-resistant dihydropteroate synthase Sul2
estrain@4 9 NA contig10 486 1307 + blaOXA class D beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM INTERNAL_STOP 274 274 100.00 99.64 274 WP_000722315.1 oxacillin-hydrolyzing class D beta-lactamase OXA-9 NF000270.1 class D beta-lactamase
estrain@4 10 blaTEM-internal_stop contig11 113 547 + blaTEM TEM family class A beta-lactamase core AMR AMR BETA-LACTAM BETA-LACTAM PARTIALP 144 286 50.35 97.22 144 WP_000027057.1 class A broad-spectrum beta-lactamase TEM-1 NF000531.2 TEM family class A beta-lactamase
estrain@4 11 nimIJ_hmm contigX 1 501 + nimIJ NimIJ family nitroimidazole resistance protein core AMR AMR NITROIMIDAZOLE NITROIMIDAZOLE HMM 166 NA NA NA NA NA NA NF000262.1 NimIJ family nitroimidazole resistance protein