TB-Profiler result

Run: SRR13837473
Summary

Run ID: SRR13837473

Sample name:

Date: 03-04-2023 09:11:13

Number of reads: 891320

Percentage reads mapped: 97.08

Strain: lineage4.9

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
lineage4.9 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
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
gyrB 5192 c.-48C>G upstream_gene_variant 1.0
gyrA 9658 c.2357_2358insT frameshift_variant 1.0
fgd1 490779 c.-4A>T upstream_gene_variant 1.0
rpoB 760041 p.Gly79Arg missense_variant 1.0
rpoB 760370 c.564C>G synonymous_variant 0.13
rpoB 760376 p.Asp190Glu missense_variant 0.14
rpoB 760380 p.Thr192Leu missense_variant 0.15
rpoB 760406 c.600G>C synonymous_variant 0.12
rpoB 760412 c.606C>G synonymous_variant 0.13
rpoB 760424 c.618C>G synonymous_variant 0.13
rpoB 760652 c.846C>A synonymous_variant 1.0
rpoB 761122 p.Pro439Arg missense_variant 0.92
mmpL5 775929 p.Asn851Ile missense_variant 1.0
mmpS5 778941 c.-36A>G upstream_gene_variant 1.0
embR 1417376 c.-29T>C upstream_gene_variant 1.0
rrl 1473740 n.83G>A non_coding_transcript_exon_variant 1.0
rrl 1474574 n.917A>T non_coding_transcript_exon_variant 1.0
rpsA 1833928 c.387G>C synonymous_variant 0.12
rpsA 1833940 c.399C>G synonymous_variant 0.17
rpsA 1833971 c.430C>T synonymous_variant 0.15
rpsA 1833979 c.438T>C synonymous_variant 0.14
rpsA 1834000 c.459G>C synonymous_variant 0.12
rpsA 1834021 c.480C>T synonymous_variant 0.14
rpsA 1834030 c.489C>G synonymous_variant 0.14
rpsA 1834610 p.Arg357Gly missense_variant 1.0
ndh 2101828 c.1215C>T synonymous_variant 1.0
PPE35 2168706 p.Ser636Phe missense_variant 1.0
pncA 2289887 c.-646A>C upstream_gene_variant 1.0
kasA 2518783 c.669T>C synonymous_variant 0.11
kasA 2518789 c.675G>C synonymous_variant 0.11
folC 2746838 p.Ala254Glu missense_variant 1.0
ribD 2987500 p.Gly221Asp missense_variant 1.0
thyX 3068082 c.-137T>C upstream_gene_variant 1.0
fbiD 3338954 c.-164A>G upstream_gene_variant 1.0
fbiD 3339235 p.Leu40Val missense_variant 1.0
fbiD 3339406 p.Thr97Ala missense_variant 1.0
Rv3083 3448625 p.Leu41Gln missense_variant 0.97
fbiB 3642247 p.Asn238Thr missense_variant 1.0
fbiB 3642283 p.Glu250Ala missense_variant 1.0
clpC1 4039483 c.1221_1222insC frameshift_variant 1.0
embC 4240911 p.Ala350Val missense_variant 0.12
embC 4240921 c.1059C>G synonymous_variant 0.12
embC 4240924 c.1062C>G synonymous_variant 0.12
embA 4243843 c.613dupG frameshift_variant 1.0
embA 4244833 p.Val534Ala missense_variant 1.0
embA 4245735 p.Ala835Ser missense_variant 1.0
embB 4248208 c.1695C>T synonymous_variant 0.14
embB 4248220 c.1707A>C synonymous_variant 0.13
aftB 4267994 p.Met281Ile missense_variant 1.0