TB-Profiler result

Run: SRR4034581
Summary

Run ID: SRR4034581

Sample name:

Date: 04-04-2023 06:54:05

Number of reads: 1171479

Percentage reads mapped: 99.48

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 0.99
lineage4.1.2 Euro-American T;H None 0.99
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 8061 p.Arg254Cys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777103 p.Ala460Thr missense_variant 0.11
mmpL5 777320 c.1161C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304941 p.Ile671Val missense_variant 0.17
fbiC 1304967 c.2037G>A synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918591 c.652C>T synonymous_variant 0.11
PPE35 2167947 p.Asn889Ile missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519241 p.Pro376Leu missense_variant 0.14
folC 2746352 c.1246delG frameshift_variant 0.12
folC 2747773 c.-175G>A upstream_gene_variant 0.13
ribD 2986924 p.Pro29His missense_variant 0.12
thyX 3067774 p.Ala58Thr missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448757 p.Ile85Asn missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474282 p.Glu92Asp missense_variant 0.18
fprA 3475365 c.1359T>C synonymous_variant 0.18
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
embC 4239857 c.-6C>T upstream_gene_variant 0.11
embC 4240991 p.Ala377Thr missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.89
embB 4249194 p.Pro894His missense_variant 0.14
ubiA 4269362 p.Leu158Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0