TB-Profiler result

Run: SRR13861641
Summary

Run ID: SRR13861641

Sample name:

Date: 03-04-2023 09:36:54

Number of reads: 475148

Percentage reads mapped: 23.78

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 0.79 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
gyrA 7346 p.Ile15Met missense_variant 0.93
gyrA 8335 p.Met345Arg missense_variant 1.0
gyrA 9639 p.Gly780Arg missense_variant 1.0
fgd1 491505 c.723G>A synonymous_variant 1.0
mshA 576310 p.Ile321Met missense_variant 1.0
mmpL5 775981 p.Leu834Val missense_variant 1.0
mmpL5 776732 c.1749C>T synonymous_variant 1.0
mmpL5 777942 p.Pro180Leu missense_variant 1.0
fbiC 1303422 c.492A>G synonymous_variant 1.0
Rv1258c 1406592 p.Tyr250Cys missense_variant 1.0
embR 1416737 p.Arg204Gln missense_variant 1.0
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.25
rrs 1472101 n.256G>A non_coding_transcript_exon_variant 0.35
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.35
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.6
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.72
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.56
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.76
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.76
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.76
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.7
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.7
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.67
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.7
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.72
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.69
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.69
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.67
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.67
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.69
rrs 1472230 n.385C>T non_coding_transcript_exon_variant 0.13
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.67
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.67
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.64
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.59
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.48
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.39
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.35
rrs 1472271 n.426T>C non_coding_transcript_exon_variant 0.11
rrs 1472505 n.660G>A non_coding_transcript_exon_variant 0.33
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.53
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.73
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.73
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.72
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.73
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.73
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.73
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.76
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.76
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.76
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.78
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.79
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.79
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.78
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.78
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.83
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.84
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.88
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.84
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.84
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.83
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.85
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.83
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.83
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.79
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.79
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.79
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.79
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.61
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.23
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.21
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.21
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.21
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.2
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.2
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.19
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.21
rrs 1473281 n.1436C>A non_coding_transcript_exon_variant 0.24
rrs 1473282 n.1437C>G non_coding_transcript_exon_variant 0.24
rrs 1473288 n.1443C>A non_coding_transcript_exon_variant 0.2
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.2
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.2
rrs 1473296 n.1451G>C non_coding_transcript_exon_variant 0.2
rrs 1473297 n.1452G>T non_coding_transcript_exon_variant 0.2
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.2
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.17
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.17
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.17
rrl 1475277 n.1620G>C non_coding_transcript_exon_variant 1.0
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.14
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.75
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.76
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.84
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.86
rrl 1476263 n.2606C>T non_coding_transcript_exon_variant 0.16
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.86
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.84
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.84
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.84
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.84
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.85
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.85
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.85
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.85
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.85
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.85
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.86
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.88
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.87
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.93
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.95
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.96
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.95
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.96
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.95
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.73
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.95
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.95
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.95
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.94
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.95
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.93
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.87
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.83
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.82
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.83
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.81
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.82
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.85
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.84
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.84
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.84
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.84
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.82
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.8
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.79
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.8
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.76
rrl 1476595 n.2938C>G non_coding_transcript_exon_variant 0.32
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.19
rpsA 1834091 p.Val184Met missense_variant 1.0
tlyA 1918473 c.534T>A synonymous_variant 1.0
Rv1979c 2221849 p.Leu439Gln missense_variant 1.0
Rv1979c 2222231 p.Met312Leu missense_variant 1.0
Rv1979c 2222710 p.Asn152Ile missense_variant 1.0
kasA 2518499 p.Met129Val missense_variant 0.22
eis 2714723 p.Cys204Gly missense_variant 1.0
folC 2746975 p.Asp208Glu missense_variant 1.0
pepQ 2860233 c.186T>G synonymous_variant 1.0
thyA 3073781 p.Leu231Ile missense_variant 1.0
Rv3083 3448420 c.-84_-83insT upstream_gene_variant 1.0
whiB7 3568689 c.-11delT upstream_gene_variant 1.0
embC 4240494 p.Gly211Ala missense_variant 1.0
embC 4241732 p.Ala624Pro missense_variant 1.0
embA 4245672 p.Gly814Arg missense_variant 1.0
embB 4247458 p.Tyr315* stop_gained 1.0
aftB 4268265 p.Leu191Gln missense_variant 1.0