TB-Profiler result

Run: SRR6257060
Summary

Run ID: SRR6257060

Sample name:

Date: 04-04-2023 13:24:42

Number of reads: 529157

Percentage reads mapped: 100.0

Strain: lineage4.2.1.1

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
lineage4.2 Euro-American H;T;LAM None 1.0
lineage4.2.1 Euro-American (TUR) H3;H4 None 1.0
lineage4.2.1.1 Euro-American (TUR) H3;H4 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 5290 c.51C>A synonymous_variant 0.12
gyrB 5649 p.Val137Asp missense_variant 0.1
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9113 c.1812C>T synonymous_variant 0.11
gyrA 9269 c.1968C>T synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620455 p.Ala189Thr missense_variant 0.11
rpoB 762910 p.Ile1035Thr missense_variant 0.11
rpoC 764305 p.Met312Ile missense_variant 0.11
rpoC 766705 p.Met1112Ile missense_variant 0.12
rpoC 766711 c.3342C>A synonymous_variant 0.12
rpoC 766713 p.Ser1115* stop_gained 0.12
rpoC 767044 c.3675G>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777451 p.Val344Leu missense_variant 1.0
mmpL5 778087 p.Asp132Tyr missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800964 c.156G>T synonymous_variant 0.14
fbiC 1302848 c.-83T>C upstream_gene_variant 0.13
fbiC 1303389 c.459G>T synonymous_variant 0.15
fbiC 1303508 p.Pro193Leu missense_variant 0.1
Rv1258c 1406946 p.Ala132Asp missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473160 n.1315G>A non_coding_transcript_exon_variant 0.11
rrs 1473253 n.1408G>T non_coding_transcript_exon_variant 0.12
rrl 1474650 n.993G>T non_coding_transcript_exon_variant 0.18
inhA 1674584 p.Ala128Asp missense_variant 0.12
inhA 1674996 p.His265Gln missense_variant 0.12
rpsA 1834506 p.His322Arg missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918622 p.Ser228Ile missense_variant 0.11
katG 2156079 c.33C>G synonymous_variant 0.11
PPE35 2169402 p.Thr404Met missense_variant 1.0
PPE35 2169582 p.Ser344Tyr missense_variant 0.18
PPE35 2169879 p.Phe245Cys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289332 c.-91G>A upstream_gene_variant 0.17
eis 2715487 c.-155G>A upstream_gene_variant 0.14
ahpC 2726490 p.His100Asn missense_variant 0.13
ahpC 2726659 p.Arg156His missense_variant 0.11
folC 2746564 c.1035A>G synonymous_variant 0.14
pepQ 2859465 p.Ala318Asp missense_variant 0.17
pepQ 2859739 p.Ala227Val missense_variant 0.13
Rv2752c 3064571 p.Val541Leu missense_variant 0.11
Rv2752c 3064807 p.Leu462Pro missense_variant 0.14
Rv2752c 3064921 p.Glu424Val missense_variant 0.1
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448405 c.-99G>A upstream_gene_variant 0.11
Rv3083 3449033 p.Gly177Asp missense_variant 0.2
Rv3083 3449212 p.Arg237Ser missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3640914 c.-621C>A upstream_gene_variant 0.11
alr 3840594 p.Thr276Ser missense_variant 0.11
alr 3841504 c.-84C>A upstream_gene_variant 0.13
ddn 3986910 p.Arg23Trp missense_variant 0.15
embC 4240013 p.Pro51Thr missense_variant 0.11
embC 4240826 p.Ala322Pro missense_variant 0.22
embC 4240898 p.Leu346Ile missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244480 c.1248G>C synonymous_variant 0.22
embA 4245724 p.Gly831Val missense_variant 0.11
embB 4246544 p.Thr11Ala missense_variant 0.15
embB 4247956 c.1443G>A synonymous_variant 0.11
embB 4248220 c.1707A>C synonymous_variant 0.17
aftB 4268828 c.9G>T synonymous_variant 0.11
aftB 4269774 c.-938G>T upstream_gene_variant 0.14
whiB6 4338251 p.Ala91Ser missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407907 p.Glu99Gly missense_variant 1.0
gid 4408213 c.-11C>T upstream_gene_variant 1.0