TB-Profiler result

Run: SRR13861532
Summary

Run ID: SRR13861532

Sample name:

Date: 03-04-2023 09:34:06

Number of reads: 127282

Percentage reads mapped: 4.25

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 0.94 streptomycin
ethA 4326568 c.905delT frameshift_variant 1.0 ethionamide
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
gyrA 9242 c.1941A>C synonymous_variant 0.22
gyrA 9252 p.Val651Ile missense_variant 0.22
gyrA 9275 c.1974G>A synonymous_variant 0.22
gyrA 9278 c.1977G>C synonymous_variant 0.22
gyrA 9281 c.1980C>G synonymous_variant 0.25
gyrA 9284 c.1983T>C synonymous_variant 0.25
gyrA 9291 c.1990C>T synonymous_variant 0.25
gyrA 9296 c.1995T>C synonymous_variant 0.29
gyrA 9304 p.Gly668Glu missense_variant 0.29
gyrA 9311 c.2010C>T synonymous_variant 0.29
gyrA 9323 c.2022C>G synonymous_variant 0.22
gyrA 9335 c.2034G>C synonymous_variant 0.22
gyrA 9345 c.2044A>C synonymous_variant 0.2
gyrA 9374 c.2073G>C synonymous_variant 0.2
gyrA 9377 c.2076A>G synonymous_variant 0.22
mshA 575967 p.Val207Asp missense_variant 1.0
rpoB 759961 p.Thr52Asn missense_variant 1.0
rpoB 763050 p.Leu1082Met missense_variant 1.0
rpoC 763528 c.159G>A synonymous_variant 1.0
mmpL5 775701 p.Pro927Gln missense_variant 1.0
mmpL5 778828 c.-348G>A upstream_gene_variant 1.0
rplC 801353 p.Val182Ala missense_variant 1.0
rrs 1472101 n.256G>A non_coding_transcript_exon_variant 0.5
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.62
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.9
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.95
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.72
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.96
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.94
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.95
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.95
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.95
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.94
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.95
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.95
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.9
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.92
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.92
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.92
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.92
rrs 1472230 n.385C>T non_coding_transcript_exon_variant 0.33
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.92
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.92
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.92
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.86
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.82
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.68
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.61
rrs 1472269 n.424G>A non_coding_transcript_exon_variant 0.36
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.38
rrs 1472277 n.432C>A non_coding_transcript_exon_variant 0.27
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.54
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.76
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.91
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.91
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.91
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.92
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.91
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.92
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.94
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.92
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.92
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.92
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.94
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.94
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.91
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.92
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.96
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.96
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.96
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.95
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.95
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.94
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.95
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.93
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.94
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.94
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.94
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.94
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.94
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.86
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.5
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.75
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.75
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.75
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.75
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.75
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.75
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.75
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.69
rrs 1473281 n.1436C>A non_coding_transcript_exon_variant 0.75
rrs 1473282 n.1437C>G non_coding_transcript_exon_variant 0.75
rrs 1473288 n.1443C>A non_coding_transcript_exon_variant 0.75
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.77
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.69
rrs 1473296 n.1451G>C non_coding_transcript_exon_variant 0.69
rrs 1473297 n.1452G>T non_coding_transcript_exon_variant 0.67
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.75
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.75
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.75
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.69
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.33
rrl 1474012 n.355C>T non_coding_transcript_exon_variant 0.33
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.5
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.8
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.95
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.97
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.97
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.97
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.97
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.96
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.96
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.96
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.94
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.95
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.96
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.96
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.95
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.95
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.96
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.96
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.96
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.96
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.98
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.99
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.98
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.99
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.99
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.98
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.78
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.98
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.99
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.99
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.99
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.99
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.98
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.97
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.95
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.95
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.95
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.95
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.95
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.95
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 0.95
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.96
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.96
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.94
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.94
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.94
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.94
rrl 1476595 n.2938C>G non_coding_transcript_exon_variant 0.81
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.4
inhA 1674876 c.675C>G synonymous_variant 0.4
rpsA 1833589 c.48A>T synonymous_variant 0.29
rpsA 1833595 c.54T>C synonymous_variant 0.29
rpsA 1833619 c.78A>C synonymous_variant 0.33
rpsA 1833661 c.120A>G synonymous_variant 0.3
rpsA 1833667 c.126C>G synonymous_variant 0.3
rpsA 1833724 c.183C>G synonymous_variant 0.33
rpsA 1834175 p.Arg212* stop_gained 1.0
ald 3087218 p.Met133Ile missense_variant 1.0
whiB7 3568679 p.Val1Leu missense_variant 1.0
clpC1 4038773 c.1932T>C synonymous_variant 0.4
clpC1 4038790 c.1915C>T synonymous_variant 0.29
clpC1 4038812 c.1893T>C synonymous_variant 0.29
clpC1 4038815 c.1890G>T synonymous_variant 0.29
clpC1 4038851 c.1854G>A synonymous_variant 0.33
clpC1 4038878 c.1827A>G synonymous_variant 0.43
clpC1 4038908 c.1797C>G synonymous_variant 0.3
clpC1 4038914 c.1791G>C synonymous_variant 0.22
clpC1 4038923 c.1782A>G synonymous_variant 0.2
clpC1 4038932 c.1773G>C synonymous_variant 0.25
clpC1 4040066 c.639G>T synonymous_variant 1.0
embA 4243358 c.126C>T synonymous_variant 1.0
embA 4243469 c.237C>T synonymous_variant 1.0
ubiA 4269557 p.Ala93Pro missense_variant 1.0