TB-Profiler result

Run: SRR13861179
Summary

Run ID: SRR13861179

Sample name:

Date: 03-04-2023 09:25:24

Number of reads: 1017217

Percentage reads mapped: 33.94

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 0.62 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 759613 c.-194C>A upstream_gene_variant 1.0
rpoB 759854 p.Ser16Arg missense_variant 1.0
rpoC 765119 p.Gly584Arg missense_variant 1.0
rpoC 766845 p.Arg1159His missense_variant 1.0
mmpL5 776280 p.Arg734His missense_variant 1.0
mmpR5 778208 c.-782C>G upstream_gene_variant 1.0
fbiC 1305195 c.2265T>G synonymous_variant 1.0
Rv1258c 1406120 c.1221C>T synonymous_variant 1.0
embR 1417526 c.-180delA upstream_gene_variant 1.0
rrs 1472101 n.256G>A non_coding_transcript_exon_variant 0.19
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.16
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.34
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.47
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.48
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.52
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.52
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.55
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.57
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.57
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.59
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.56
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.56
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.53
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.53
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.52
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.53
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.53
rrs 1472230 n.385C>T non_coding_transcript_exon_variant 0.17
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.5
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.51
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.48
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.35
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.35
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.25
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.22
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.11
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.2
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.52
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.52
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.52
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.52
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.53
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.53
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.5
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.53
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.53
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.53
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.52
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.51
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.49
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.5
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.63
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 0.64
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.61
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.61
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.62
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.62
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.61
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.61
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.63
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.62
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.63
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.36
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.33
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.31
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.32
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.31
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.32
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.33
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.33
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.34
rrs 1473281 n.1436C>A non_coding_transcript_exon_variant 0.33
rrs 1473282 n.1437C>G non_coding_transcript_exon_variant 0.33
rrs 1473288 n.1443C>A non_coding_transcript_exon_variant 0.33
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.33
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.33
rrs 1473296 n.1451G>C non_coding_transcript_exon_variant 0.33
rrs 1473297 n.1452G>T non_coding_transcript_exon_variant 0.33
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.32
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.33
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.33
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.33
rrl 1473960 n.303T>G non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.54
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.6
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.66
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.66
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.65
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.67
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.67
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.67
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.66
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.68
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.68
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.68
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.68
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.68
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.69
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.69
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.69
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.7
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.82
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.89
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.89
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.89
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.89
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.88
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.68
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.88
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.88
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.88
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.88
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.88
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.86
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.71
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.64
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.61
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.62
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.62
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.62
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.65
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.65
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.65
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.65
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.65
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.68
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.64
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.65
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.66
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.56
rrl 1476595 n.2938C>G non_coding_transcript_exon_variant 0.15
rpsA 1833623 c.82_83insG frameshift_variant 1.0
tlyA 1918515 c.576C>T synonymous_variant 1.0
tlyA 1918620 c.681C>A synonymous_variant 1.0
katG 2155055 p.Tyr353Asn missense_variant 0.97
PPE35 2169626 c.987C>T synonymous_variant 1.0
eis 2714776 p.Val186Glu missense_variant 0.97
ahpC 2726084 c.-109C>A upstream_gene_variant 1.0
Rv2752c 3065052 p.Glu380Asp missense_variant 1.0
Rv2752c 3065097 c.1095C>T synonymous_variant 1.0
thyA 3073902 c.570C>G synonymous_variant 1.0
panD 4044175 p.Ala36Asp missense_variant 1.0
embC 4240583 p.Thr241Ala missense_variant 1.0
whiB6 4338609 c.-88T>G upstream_gene_variant 1.0
gid 4407696 c.507C>T synonymous_variant 1.0