TB-Profiler result

Run: SRR13861691
Summary

Run ID: SRR13861691

Sample name:

Date: 03-04-2023 09:38:08

Number of reads: 409934

Percentage reads mapped: 41.03

Strain: lineage4.9

Drug-resistance: Other

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.68 streptomycin
embB 4247891 p.Arg460Cys missense_variant 1.0 ethambutol
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 6088 c.849C>A synonymous_variant 1.0
rpoB 761786 c.1980C>T synonymous_variant 1.0
rpoC 764973 p.Asp535Ala missense_variant 1.0
rpsL 781532 c.-28G>T upstream_gene_variant 1.0
fbiC 1302843 c.-88A>C upstream_gene_variant 1.0
fbiC 1302887 c.-43delG upstream_gene_variant 1.0
rrs 1472101 n.256G>A non_coding_transcript_exon_variant 0.12
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.12
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.22
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.38
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.45
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.56
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.58
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.58
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.59
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.54
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.54
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.5
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.5
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.47
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.48
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.47
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.47
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.42
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.45
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.47
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.47
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.41
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.37
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.3
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.24
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.18
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.58
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.58
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.61
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.61
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.65
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.65
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.6
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.55
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.55
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.55
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.55
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.55
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.55
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.55
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.61
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.65
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.69
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.68
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.67
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.67
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.67
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.62
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.62
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.65
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.67
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.68
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.68
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.38
rrl 1473434 n.-224T>C upstream_gene_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.48
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.53
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.63
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.65
rrl 1476263 n.2606C>T non_coding_transcript_exon_variant 0.15
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.59
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.63
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.63
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.63
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.67
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.67
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.65
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.63
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.63
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.63
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.63
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.65
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.65
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.65
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.77
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.83
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.85
rrl 1476368 n.2711T>A non_coding_transcript_exon_variant 0.14
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.85
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.85
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.83
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.7
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.82
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.85
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.85
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.85
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.87
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.84
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.77
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.69
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.62
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.6
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.6
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.6
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.62
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.6
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.64
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.62
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.62
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.62
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.59
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.59
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.59
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.58
katG 2156364 c.-253T>G upstream_gene_variant 1.0
Rv1979c 2221814 p.Leu451Val missense_variant 1.0
Rv1979c 2222030 p.Val379Met missense_variant 1.0
kasA 2519238 p.Thr375Lys missense_variant 1.0
folC 2747285 p.Val105Ala missense_variant 1.0
pepQ 2859712 p.Thr236Ser missense_variant 1.0
Rv2752c 3065064 c.1128G>T synonymous_variant 1.0
thyX 3068085 c.-140T>A upstream_gene_variant 1.0
ald 3087003 p.Asp62His missense_variant 1.0
Rv3083 3448914 p.Ile137Met missense_variant 1.0
fprA 3475146 c.1141delA frameshift_variant 1.0
whiB7 3568676 p.Ser2Pro missense_variant 1.0
fbiA 3641491 p.Ala317Pro missense_variant 1.0
alr 3840235 p.Gly396* stop_gained 1.0
alr 3840304 c.1116delT frameshift_variant 1.0
alr 3841263 p.Arg53His missense_variant 1.0
embC 4241029 p.Trp389* stop_gained 1.0
embB 4249631 p.Thr1040Pro missense_variant 1.0
aftB 4268799 p.Val13Ala missense_variant 0.18
ethA 4327197 p.Gly93Arg missense_variant 1.0