TB-Profiler result

Run: ERR11068820
Summary

Run ID: ERR11068820

Sample name:

Date: 07-04-2023 03:04:21

Number of reads: 3436458

Percentage reads mapped: 99.43

Strain: lineage4.1.2.1

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 Euro-American T;X;H None 0.97
lineage4.1.2 Euro-American T;H None 0.98
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.97
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 0.99
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.97
mshA 575237 c.-111C>T upstream_gene_variant 0.13
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.25
mshA 576113 p.Arg256Gly missense_variant 0.36
mshA 576119 p.Ala258Pro missense_variant 0.26
mshA 576273 p.Pro309Leu missense_variant 0.15
rpoB 760115 c.309C>T synonymous_variant 0.94
rpoC 764959 c.1590G>A synonymous_variant 0.95
rpoC 765150 p.Gly594Glu missense_variant 0.98
rpoC 766974 p.Ala1202Val missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 779296 p.Gly103Ser missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304208 c.1278C>T synonymous_variant 0.2
fbiC 1304287 p.Ile453Val missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917944 p.Ala2Val missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155732 p.Gln127Arg missense_variant 0.15
Rv1979c 2223233 c.-69G>C upstream_gene_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.96
ribD 2987282 c.444C>T synonymous_variant 0.4
thyX 3067415 c.531C>T synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568425 c.255T>A synonymous_variant 0.25
fbiB 3641625 p.Ala31Thr missense_variant 0.5
fbiB 3642270 p.Ala246Thr missense_variant 0.14
rpoA 3878601 c.-94C>G upstream_gene_variant 0.27
embC 4240508 p.Ala216Thr missense_variant 0.2
embC 4240559 p.Ala233Thr missense_variant 0.17
embC 4240591 c.729C>T synonymous_variant 0.14
embC 4241539 c.1677T>C synonymous_variant 0.96
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243985 c.753G>T synonymous_variant 0.2
embA 4244232 p.Ala334Thr missense_variant 0.17
embA 4244855 c.1623G>T synonymous_variant 0.22
embB 4246544 p.Thr11Ala missense_variant 0.14
embB 4246699 c.186G>A synonymous_variant 0.17
embB 4247110 c.597G>A synonymous_variant 0.17
aftB 4267699 c.1138C>T synonymous_variant 0.13
whiB6 4338292 p.Ala77Val missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0