TB-Profiler result

Run: SRR6650139
Summary

Run ID: SRR6650139

Sample name:

Date: 04-04-2023 15:17:12

Number of reads: 1127803

Percentage reads mapped: 99.58

Strain: lineage4.1.1

Drug-resistance: Other

Download CSV Download TXT Download PDF Download JSON
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
lineage4.1.1 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
ethA 4327337 c.136delG frameshift_variant 0.15 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
gyrB 6639 p.Ala467Glu missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8599 p.Gln433Leu missense_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491589 c.807G>A synonymous_variant 0.17
rpoC 762896 c.-474G>A upstream_gene_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765991 c.2622C>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472421 n.576G>A non_coding_transcript_exon_variant 0.12
rrl 1473774 n.117G>T non_coding_transcript_exon_variant 1.0
rrl 1475196 n.1540delG non_coding_transcript_exon_variant 0.2
rrl 1475527 n.1870A>G non_coding_transcript_exon_variant 0.14
rrl 1476422 n.2765C>T non_coding_transcript_exon_variant 0.18
inhA 1673368 c.-834A>G upstream_gene_variant 1.0
fabG1 1673789 p.Phe117Ser missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 0.13
PPE35 2169510 p.Asn368Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726210 c.18T>C synonymous_variant 1.0
folC 2746926 c.672delC frameshift_variant 0.12
pepQ 2860150 p.Ala90Val missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339155 p.Ile13Asn missense_variant 0.1
Rv3083 3448398 c.-106G>T upstream_gene_variant 1.0
Rv3083 3448877 p.Thr125Ile missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474158 p.Ser51Tyr missense_variant 0.11
fprA 3474342 p.Leu112Phe missense_variant 0.11
Rv3236c 3612265 c.852G>C synonymous_variant 0.12
fbiA 3641447 p.Thr302Met missense_variant 0.96
rpoA 3877553 p.Glu319Lys missense_variant 1.0
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244969 c.1737G>A synonymous_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
ethA 4326084 p.Asp464Asn missense_variant 0.11
ethA 4326678 p.Ser266Gly missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0