TB-Profiler result

Run: SRR18714994
Summary

Run ID: SRR18714994

Sample name:

Date: 03-04-2023 20:14:25

Number of reads: 4977291

Percentage reads mapped: 99.68

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
gyrA 9647 c.2346C>G synonymous_variant 0.24
mshA 576113 p.Arg256Gly missense_variant 0.21
mshA 576616 c.1269G>C synonymous_variant 0.27
rpoC 764367 p.Gly333Ala missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.28
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.15
fabG1 1673162 c.-278T>C upstream_gene_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.28
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.3
pepQ 2860159 p.Ala87Gly missense_variant 0.2
Rv2752c 3064823 p.Val457Leu missense_variant 0.21
fbiD 3339734 p.Ala206Gly missense_variant 0.57
fbiD 3339751 p.Ala212Pro missense_variant 0.21
whiB7 3568428 c.252A>G synonymous_variant 0.19
whiB7 3568431 c.249C>G synonymous_variant 0.21
Rv3236c 3612047 p.Ala357Val missense_variant 1.0
rpoA 3878597 c.-90G>C upstream_gene_variant 0.33
rpoA 3878637 c.-130G>C upstream_gene_variant 0.5
rpoA 3878641 c.-134C>G upstream_gene_variant 0.73
embC 4240409 p.Pro183Ala missense_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244662 p.Ala477Gly missense_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.42
embB 4246544 p.Thr11Pro missense_variant 0.14
embB 4246548 p.Pro12Gln missense_variant 0.12
embB 4246555 c.42G>C synonymous_variant 0.13
embB 4246556 p.Ala15Pro missense_variant 0.13
embB 4246584 p.Arg24Pro missense_variant 0.24
embB 4246820 p.Pro103Thr missense_variant 1.0
embB 4247016 p.Ser168Trp missense_variant 0.41
embB 4247020 c.507C>G synonymous_variant 0.31
ethA 4326505 c.969C>G synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0