TB-Profiler result

Run: SRR13861519
Summary

Run ID: SRR13861519

Sample name:

Date: 03-04-2023 09:33:47

Number of reads: 62227

Percentage reads mapped: 2.08

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 0.98 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
gyrB 5319 p.Arg27Leu missense_variant 1.0
rpoB 760867 p.Gly354Asp missense_variant 1.0
rpoB 762496 c.2691delC frameshift_variant 1.0
rpoC 764188 c.819A>G synonymous_variant 0.5
rpoC 764195 p.Ser276Gln missense_variant 0.5
rpoC 764203 c.834G>T synonymous_variant 0.5
rpoC 764206 c.837T>C synonymous_variant 0.5
rpoC 764257 c.888G>C synonymous_variant 0.5
rpoC 764266 c.897T>C synonymous_variant 0.67
rpoC 764269 c.900G>C synonymous_variant 0.67
rpoC 764278 c.909A>G synonymous_variant 0.67
rpoC 764282 c.913_915delTCGinsAGC synonymous_variant 0.67
rpoC 764320 c.951C>G synonymous_variant 0.75
rpoC 764365 c.996C>T synonymous_variant 0.67
rpoC 764380 c.1011G>C synonymous_variant 0.5
rpoC 764381 c.1012_1013delTCinsAG synonymous_variant 0.5
rpoC 764387 c.1018T>C synonymous_variant 0.5
rpoC 764405 c.1036A>C synonymous_variant 0.5
rpoC 764793 p.Met475Arg missense_variant 1.0
mmpL5 775976 c.2505G>C synonymous_variant 1.0
rplC 800769 c.-40A>T upstream_gene_variant 1.0
rrs 1471836 n.-10A>G upstream_gene_variant 1.0
rrs 1472101 n.256G>A non_coding_transcript_exon_variant 0.67
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.67
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.84
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.89
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.79
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.93
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.93
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.94
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.94
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.92
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.94
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.92
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.92
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.94
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.94
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.94
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.94
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.94
rrs 1472230 n.385C>T non_coding_transcript_exon_variant 0.32
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.94
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.94
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.94
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.91
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.89
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.88
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.85
rrs 1472269 n.424G>A non_coding_transcript_exon_variant 0.6
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.6
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.8
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.89
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.96
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.96
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.94
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.96
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.94
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.96
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.94
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.98
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.98
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.98
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 1.0
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.98
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.98
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.98
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.98
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.99
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.98
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.98
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.98
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.98
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.98
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.98
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.96
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.97
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.97
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.98
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.98
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.91
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.5
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.5
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 1.0
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 1.0
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 1.0
rrs 1473080 n.1235C>A non_coding_transcript_exon_variant 1.0
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 1.0
rrs 1473083 n.1238G>A non_coding_transcript_exon_variant 1.0
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 1.0
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 1.0
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 1.0
rrs 1473110 n.1265T>C non_coding_transcript_exon_variant 1.0
rrs 1473115 n.1270G>A non_coding_transcript_exon_variant 1.0
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 1.0
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 1.0
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 1.0
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 1.0
rrs 1473131 n.1286G>T non_coding_transcript_exon_variant 1.0
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 1.0
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 1.0
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 1.0
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.93
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.93
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.93
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.93
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.93
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.93
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.93
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.93
rrs 1473281 n.1436C>A non_coding_transcript_exon_variant 0.93
rrs 1473282 n.1437C>G non_coding_transcript_exon_variant 0.93
rrs 1473288 n.1443C>A non_coding_transcript_exon_variant 0.93
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.93
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.93
rrs 1473296 n.1451G>C non_coding_transcript_exon_variant 0.93
rrs 1473297 n.1452G>T non_coding_transcript_exon_variant 0.93
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.93
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.93
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.93
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.93
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.9
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.98
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.99
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.99
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 1.0
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.99
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.99
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.99
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.99
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.99
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.99
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.99
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.99
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.99
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.99
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.99
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.99
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.99
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.98
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 1.0
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 1.0
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 1.0
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.99
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 1.0
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.77
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.99
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 1.0
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 1.0
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 1.0
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.99
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.99
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.99
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.98
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.99
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.99
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.99
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.95
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.95
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.99
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.99
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.99
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.99
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.99
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.99
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.97
rrl 1476595 n.2938C>G non_coding_transcript_exon_variant 0.6
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.5
inhA 1674840 c.639C>G synonymous_variant 0.67
PPE35 2168627 p.Ile662Met missense_variant 1.0
ribD 2987205 p.Ser123Ala missense_variant 1.0
ribD 2987347 p.Pro170Leu missense_variant 1.0
Rv3083 3448903 p.Asp134His missense_variant 1.0
clpC1 4039610 c.1095G>C synonymous_variant 0.4
clpC1 4039616 c.1089G>C synonymous_variant 0.4
clpC1 4039622 c.1083C>G synonymous_variant 0.4
clpC1 4039663 p.Gly348Ser missense_variant 0.6
clpC1 4039682 c.1023C>G synonymous_variant 0.4
clpC1 4039685 c.1020C>T synonymous_variant 0.4
clpC1 4039694 c.1011G>C synonymous_variant 0.4
clpC1 4039724 c.981A>G synonymous_variant 0.4
embC 4240642 c.780G>C synonymous_variant 0.4
embC 4240645 c.783G>C synonymous_variant 0.4
embC 4240654 c.792C>T synonymous_variant 0.4
embC 4240657 c.795G>C synonymous_variant 0.4
embC 4240671 p.Thr270Ile missense_variant 0.4
embC 4240678 c.816T>G synonymous_variant 0.4
embC 4240685 p.Thr275Ala missense_variant 0.5
embC 4240693 c.831T>C synonymous_variant 0.5
embC 4240706 p.Val282Thr missense_variant 0.5
embC 4240726 c.864G>C synonymous_variant 0.4
embC 4240780 c.918T>C synonymous_variant 0.4
embC 4240783 c.921G>C synonymous_variant 0.4
embA 4246449 p.Val1073Phe missense_variant 1.0