TB-Profiler result

Run: SRR6046874
Summary

Run ID: SRR6046874

Sample name:

Date: 04-04-2023 12:24:46

Number of reads: 884717

Percentage reads mapped: 84.55

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 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 0.46 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 7362 p.Glu21Gln missense_variant 0.93
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491027 p.Asn82Thr missense_variant 0.32
ccsA 619831 c.-60T>G upstream_gene_variant 0.3
ccsA 620029 c.139C>T synonymous_variant 1.0
rpoC 766792 c.3423C>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407133 p.Gly70Arg missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.5
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.5
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.4
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.4
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.5
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.57
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.4
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.17
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.5
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.45
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.45
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.38
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.38
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.46
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.46
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.3
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.67
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.5
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.5
rrl 1474734 n.1077G>C non_coding_transcript_exon_variant 1.0
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 1.0
rrl 1474774 n.1117A>G non_coding_transcript_exon_variant 1.0
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474802 n.1145T>C non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 1.0
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1475031 n.1374G>T non_coding_transcript_exon_variant 1.0
rrl 1475059 n.1403_1404insTA non_coding_transcript_exon_variant 1.0
rrl 1475062 n.1405A>T non_coding_transcript_exon_variant 1.0
rrl 1475065 n.1409_1411delCAA non_coding_transcript_exon_variant 1.0
rrl 1475080 n.1425_1426delCC non_coding_transcript_exon_variant 1.0
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 1.0
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 1.0
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 1.0
rrl 1475124 n.1467A>T non_coding_transcript_exon_variant 1.0
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.29
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.29
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.25
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.25
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.29
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.22
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.22
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.22
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.22
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.22
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.2
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.27
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.27
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.27
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.36
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.17
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.17
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.17
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.17
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.17
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.17
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.17
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.17
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.17
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.17
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.18
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.46
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.5
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.55
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.61
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.59
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.56
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.52
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.52
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.58
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.58
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.58
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.32
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.23
fabG1 1674094 p.Gly219Arg missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153938 p.Val725Ala missense_variant 0.12
PPE35 2170131 p.Val161Ala missense_variant 0.18
PPE35 2170280 c.333C>T synonymous_variant 0.11
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289891 c.-650G>A upstream_gene_variant 0.12
kasA 2518151 p.Ser13Arg missense_variant 0.11
pepQ 2860113 c.306C>T synonymous_variant 1.0
ribD 2986785 c.-54T>C upstream_gene_variant 1.0
ribD 2987220 p.Arg128Cys missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612942 p.Ala59Pro missense_variant 0.11
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embC 4240403 p.Gly181Arg missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245315 p.Val695Met missense_variant 1.0
embB 4247661 p.Ala383Val missense_variant 1.0
ubiA 4269864 c.-31C>G upstream_gene_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0