TB-Profiler result

Run: SRR13861516
Summary

Run ID: SRR13861516

Sample name:

Date: 03-04-2023 09:33:44

Number of reads: 1635262

Percentage reads mapped: 54.56

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 0.23 streptomycin
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
rpoB 761402 c.1596C>T synonymous_variant 1.0
rpoC 762473 c.-897C>A upstream_gene_variant 1.0
mmpS5 778694 p.Tyr71Ser missense_variant 1.0
mmpR5 779478 p.Glu163Asp missense_variant 1.0
rplC 800969 p.Tyr54Ser missense_variant 1.0
embR 1417498 c.-151G>T upstream_gene_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.14
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.19
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.2
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.22
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.23
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.23
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.22
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.21
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.23
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.21
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.22
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.22
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.22
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.21
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.21
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.21
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.19
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.14
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.14
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.14
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.17
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.26
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.23
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.23
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.22
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.24
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.22
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.22
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.22
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.22
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.23
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.24
rrs 1473125 n.1280A>T non_coding_transcript_exon_variant 1.0
rrl 1475195 n.1538G>T non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.16
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.15
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.19
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.19
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.2
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.2
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.19
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.19
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.19
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.19
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.19
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.19
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.19
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.19
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.19
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.2
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.2
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.22
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.39
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.48
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.59
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.6
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.49
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.11
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.59
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.43
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.11
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.59
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.11
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.54
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.48
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.58
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.11
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.54
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.41
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.31
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.18
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.15
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.15
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.14
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.14
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.15
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.14
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.14
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.14
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.15
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.15
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.14
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.13
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.13
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.12
katG 2155952 p.Val54Ile missense_variant 1.0
kasA 2518986 p.Met291Arg missense_variant 1.0
Rv2752c 3065218 p.Ser325Ile missense_variant 1.0
Rv3083 3448654 p.Pro51Ala missense_variant 1.0
whiB7 3568465 p.Asp72Val missense_variant 1.0
fbiA 3640597 p.Val19Leu missense_variant 1.0
alr 3840493 p.Leu310Val missense_variant 1.0
embC 4239802 c.-61T>A upstream_gene_variant 1.0
embC 4241184 p.Thr441Lys missense_variant 1.0
embA 4243518 p.Gly96Cys missense_variant 1.0
embA 4244162 c.931dupC frameshift_variant 1.0
embB 4247920 c.1407T>C synonymous_variant 1.0
ethA 4327042 p.Asp144Glu missense_variant 1.0
ethR 4327865 p.Gly106Ala missense_variant 1.0