TB-Profiler result

Run: SRR2101433
Summary

Run ID: SRR2101433

Sample name:

Date: 03-04-2023 23:42:46

Number of reads: 420773

Percentage reads mapped: 99.01

Strain: lineage4.1.1.3

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 0.99
lineage4.1 Euro-American T;X;H None 0.99
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 0.98
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 0.98
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 490670 c.-113G>A upstream_gene_variant 0.12
rpoB 761512 p.Glu569Gly missense_variant 0.11
rpoB 762820 p.Phe1005Ser missense_variant 0.14
rpoB 763215 p.Ala1137Ser missense_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 767128 c.3759C>T synonymous_variant 0.14
rpoC 767198 p.Glu1277Lys missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778270 p.Ser71Pro missense_variant 1.0
mmpL5 778600 c.-120C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304498 p.Pro523His missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474076 n.419C>T non_coding_transcript_exon_variant 0.11
rrl 1475632 n.1978delG non_coding_transcript_exon_variant 0.13
rrl 1476445 n.2788G>A non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170008 p.Ala202Glu missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726715 p.Ala175Ser missense_variant 0.11
Rv2752c 3065477 p.Ala239Ser missense_variant 0.11
Rv2752c 3066388 c.-197C>T upstream_gene_variant 0.15
ald 3086621 c.-199C>T upstream_gene_variant 0.17
ald 3086771 c.-49T>C upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087156 p.Thr113Ser missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612113 c.1003delG frameshift_variant 0.14
fbiB 3642046 p.Ala171Val missense_variant 0.17
clpC1 4039949 c.756G>A synonymous_variant 1.0
clpC1 4040555 c.150G>A synonymous_variant 0.12
embC 4241935 c.2073C>A synonymous_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.95
embA 4243215 c.-18C>A upstream_gene_variant 0.12
embA 4243726 p.Glu165Gly missense_variant 0.14
embA 4244407 p.Thr392Lys missense_variant 0.14
embA 4244438 c.1206C>T synonymous_variant 0.12
embB 4246781 p.Ala90Ser missense_variant 0.11
embB 4247512 p.Tyr333* stop_gained 0.11
embB 4248615 p.Ala701Val missense_variant 0.13
embB 4249181 p.His890Tyr missense_variant 0.12
embB 4249408 c.2895G>A synonymous_variant 1.0
embB 4249633 c.3120C>A synonymous_variant 0.22
aftB 4268767 p.Arg24Ser missense_variant 0.22
ethA 4327475 c.-2C>A upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407798 c.405G>T synonymous_variant 1.0