TB-Profiler result

Run: SRR4035804
Summary

Run ID: SRR4035804

Sample name:

Date: 04-04-2023 07:18:31

Number of reads: 1363439

Percentage reads mapped: 99.45

Strain: lineage4.1.2

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 1.0
lineage4.1.2 Euro-American T;H 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 6186 p.His316Arg missense_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8061 p.Arg254Cys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575849 p.Arg168Cys missense_variant 0.12
ccsA 620450 p.Leu187Pro missense_variant 0.12
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760421 c.617_618delTC frameshift_variant 0.12
rpoB 761191 p.Ala462Gly missense_variant 0.12
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 764333 p.Pro322Ala missense_variant 0.12
rpoC 764344 c.975C>T synonymous_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801131 p.Asp108Gly missense_variant 0.12
fbiC 1305006 c.2076A>G synonymous_variant 0.12
fbiC 1305089 p.Val720Ala missense_variant 0.12
Rv1258c 1406147 c.1194C>A synonymous_variant 0.2
Rv1258c 1406524 p.Val273Leu missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918500 c.561G>A synonymous_variant 0.14
tlyA 1918584 c.645A>G synonymous_variant 0.12
katG 2154337 p.Asp592Val missense_variant 0.12
PPE35 2168094 p.Asn840Ser missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518848 p.Leu245Pro missense_variant 0.12
ribD 2987245 p.Thr136Ile missense_variant 0.13
thyX 3067500 p.Lys149Met missense_variant 0.15
thyX 3067507 c.439C>T synonymous_variant 0.15
thyA 3074602 c.-131G>A upstream_gene_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 0.98
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
alr 3841072 p.Gly117Ser missense_variant 0.13
embC 4239975 p.Leu38Pro missense_variant 0.11
embC 4239995 p.Ile45Phe missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244857 p.Ala542Val missense_variant 0.13
embA 4244911 p.Leu560Pro missense_variant 0.11
embA 4245270 c.2038C>A synonymous_variant 0.14
embA 4245331 p.Gly700Asp missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408360 c.-159delA upstream_gene_variant 0.12