TB-Profiler result

Run: ERR4407476
Summary

Run ID: ERR4407476

Sample name:

Date: 01-04-2023 05:45:41

Number of reads: 274613

Percentage reads mapped: 99.55

Strain: lineage4.8

Drug-resistance: Sensitive

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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
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 1.0
ccsA 620444 p.Val185Glu missense_variant 0.18
rpoB 763245 p.Glu1147* stop_gained 0.12
rpoC 763328 c.-42_-41insT upstream_gene_variant 1.0
rpoC 764081 p.Glu238Lys missense_variant 0.12
rpoC 764542 c.1173C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776407 p.Pro692Ala missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406254 p.Gly363Ser missense_variant 0.12
Rv1258c 1407421 c.-81A>G upstream_gene_variant 0.2
embR 1417076 c.270_271delAC frameshift_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473608 n.-50G>A upstream_gene_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917885 c.-55G>A upstream_gene_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170606 p.Tyr3His missense_variant 0.29
Rv1979c 2221948 p.Ala406Asp missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518197 p.Asp28Ala missense_variant 0.29
kasA 2518200 p.Ile29Asn missense_variant 0.29
kasA 2518201 c.88delG frameshift_variant 0.29
kasA 2518218 p.Gly35Ala missense_variant 0.15
kasA 2518226 p.Ala38Ser missense_variant 0.15
pepQ 2859886 p.Ala178Asp missense_variant 0.12
ald 3087095 c.276C>T synonymous_variant 1.0
fbiB 3641614 c.83_108delATCTGAGCGCCGCCGTCGCCGCGGCG frameshift_variant 0.17
rpoA 3877842 c.666A>G synonymous_variant 0.12
ddn 3987103 p.Met87Thr missense_variant 0.11
clpC1 4038324 p.Val794Ala missense_variant 0.13
panD 4044122 p.Arg54* stop_gained 0.25
embC 4240974 p.Val371Ala missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243405 c.175_176delAC frameshift_variant 0.2
embB 4249042 c.2531delT frameshift_variant 0.12
ubiA 4269990 c.-157G>T upstream_gene_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0