TB-Profiler result

Run: ERR1200605
Summary

Run ID: ERR1200605

Sample name:

Date: 13-08-2022 02:36:58

Number of reads: 8031081

Percentage reads mapped: 98.62

Strain: lineage4.2.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 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
ethA 4327054 p.Tyr140* stop_gained 0.13 ethionamide
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 6352 c.-950C>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7799 c.498A>C synonymous_variant 0.13
gyrA 8377 p.Asp359Gly missense_variant 0.21
gyrA 8445 p.Arg382Gly missense_variant 0.21
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.27
rpoC 762836 c.-534C>G upstream_gene_variant 0.33
rpoC 764751 p.Val461Gly missense_variant 0.26
rpoC 764905 p.Phe512Leu missense_variant 0.17
rpoC 767305 p.Tyr1312* stop_gained 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406153 c.1188G>A synonymous_variant 1.0
embR 1417136 p.Ser71Ile missense_variant 0.21
rrs 1471658 n.-188T>G upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473360 n.1515T>G non_coding_transcript_exon_variant 0.3
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.16
PPE35 2167871 c.2742G>C synonymous_variant 0.13
PPE35 2169379 p.Phe412Val missense_variant 0.23
PPE35 2169879 p.Phe245Cys missense_variant 1.0
PPE35 2170748 c.-136C>T upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290023 c.-782A>C upstream_gene_variant 0.34
eis 2714366 p.Val323Leu missense_variant 0.24
eis 2715438 c.-106T>G upstream_gene_variant 1.0
ahpC 2726737 p.Asp182Ala missense_variant 0.21
ahpC 2726756 c.564C>G synonymous_variant 0.22
folC 2746186 c.1413G>C synonymous_variant 0.19
ribD 2987392 p.Arg185Pro missense_variant 0.17
Rv2752c 3064552 p.Arg547Pro missense_variant 0.13
Rv2752c 3064741 p.Gly484Ala missense_variant 0.24
Rv2752c 3065265 c.927C>G synonymous_variant 0.21
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339550 p.Gly145Trp missense_variant 0.14
Rv3083 3449058 p.Ser185Arg missense_variant 0.24
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474601 p.Arg199Gly missense_variant 0.17
fprA 3475280 p.Val425Gly missense_variant 0.29
fbiB 3641955 p.Gly141Arg missense_variant 0.17
alr 3840268 p.Thr385Pro missense_variant 0.2
rpoA 3878641 c.-135delG upstream_gene_variant 0.27
clpC1 4039363 p.Ala448Pro missense_variant 0.21
clpC1 4039618 c.1087C>A synonymous_variant 1.0
clpC1 4039932 p.Gly258Val missense_variant 0.42
embC 4241056 c.1194C>G synonymous_variant 0.21
embC 4241978 p.Ser706Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.15
embA 4243977 p.Ala249Pro missense_variant 0.35
embA 4244375 c.1143C>G synonymous_variant 0.29
embB 4248725 p.Ser738Ala missense_variant 0.16
ethA 4327672 c.-199G>A upstream_gene_variant 0.16
whiB6 4338593 c.-73delT upstream_gene_variant 1.0
whiB6 4338596 c.-75G>C upstream_gene_variant 1.0
gid 4407913 p.Arg97Leu missense_variant 1.0
gid 4408036 p.Gly56Val missense_variant 1.0