TB-Profiler result

Run: ERR4797493
Summary

Run ID: ERR4797493

Sample name:

Date: 01-04-2023 07:41:56

Number of reads: 2435900

Percentage reads mapped: 99.49

Strain: lineage4.1.1

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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8554 p.Arg418Leu missense_variant 0.25
gyrA 8747 c.1446A>G synonymous_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9636 p.Ser779Pro missense_variant 0.13
gyrA 9686 c.2385A>G synonymous_variant 0.14
mshA 576482 p.Val379Leu missense_variant 0.4
rpoB 759634 c.-173A>T upstream_gene_variant 0.33
rpoB 760591 p.Val262Gly missense_variant 0.4
rpoB 761871 c.2065C>A synonymous_variant 0.15
rpoB 762496 p.Asp897Gly missense_variant 0.22
rpoB 762895 p.Leu1030Arg missense_variant 0.15
rpoC 763043 c.-327G>A upstream_gene_variant 0.12
rpoC 763465 c.96G>A synonymous_variant 0.4
rpoC 763734 p.Pro122Leu missense_variant 0.2
rpoC 765101 c.1734delG frameshift_variant 0.5
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766430 p.Gly1021Cys missense_variant 0.2
rpoC 767124 p.Val1252Glu missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778736 c.167_169delTGG disruptive_inframe_deletion 0.22
mmpS5 779621 c.-716G>T upstream_gene_variant 0.33
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801414 c.606C>T synonymous_variant 0.17
Rv1258c 1406838 p.Val168Asp missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673687 p.Glu83Gly missense_variant 0.17
inhA 1673706 c.-496C>T upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101658 p.Ala462Val missense_variant 0.4
ndh 2101801 c.1242G>A synonymous_variant 0.15
katG 2156309 c.-198G>T upstream_gene_variant 0.17
Rv1979c 2222775 c.390C>T synonymous_variant 0.18
Rv1979c 2222809 p.Arg119Gln missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289094 p.Phe50Ile missense_variant 0.2
eis 2714880 c.453C>T synonymous_variant 0.18
ribD 2986912 p.Asp25Ala missense_variant 0.6
Rv2752c 3065096 p.Ala366Pro missense_variant 0.19
Rv2752c 3065627 p.Ser189Ala missense_variant 0.17
Rv2752c 3066368 c.-177C>A upstream_gene_variant 0.6
thyX 3067592 c.354G>C synonymous_variant 0.25
thyX 3068152 c.-207T>G upstream_gene_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449966 p.Ala488Val missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3642386 c.852C>A synonymous_variant 0.25
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878002 p.Ser169Leu missense_variant 0.25
clpC1 4039594 c.1111C>A synonymous_variant 0.18
panD 4043882 p.Pro134Thr missense_variant 0.4
embC 4239883 c.21A>C synonymous_variant 0.31
embC 4240689 c.829delG frameshift_variant 0.29
embC 4240897 c.1035C>G synonymous_variant 1.0
embC 4241205 p.Ala448Gly missense_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244045 c.813G>A synonymous_variant 0.25
embA 4245279 p.Arg683Ser missense_variant 0.12
embA 4246297 p.Gln1022Arg missense_variant 0.29
embB 4247928 p.Leu472Gln missense_variant 0.2
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4268049 p.Pro263Leu missense_variant 0.17
aftB 4268086 c.750delG frameshift_variant 0.22
aftB 4268619 p.Val73Gly missense_variant 0.28
aftB 4268623 p.Trp72Gly missense_variant 0.19
ubiA 4269332 p.Thr168Pro missense_variant 0.25
ethA 4326370 c.1104C>T synonymous_variant 0.12
ethA 4327161 p.Ile105Leu missense_variant 1.0
ethA 4327542 c.-69A>T upstream_gene_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0