TB-Profiler result

Run: SRR4034425

Summary

Run ID: SRR4034425

Sample name:

Date: 04-04-2023 06:47:45

Number of reads: 858736

Percentage reads mapped: 99.57

Strain: lineage4.3.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 None 0.99
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762883 p.Lys1026Arg missense_variant 0.18
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775952 c.2529G>T synonymous_variant 0.2
mmpL5 777477 c.1003delC frameshift_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303536 c.606G>C synonymous_variant 1.0
embR 1417051 c.297G>A synonymous_variant 0.1
embR 1417242 c.105delA frameshift_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.16
PPE35 2169866 c.747G>C synonymous_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290107 c.-866T>A upstream_gene_variant 1.0
pepQ 2860166 p.Gly85Ser missense_variant 0.2
ribD 2986863 p.Ala9Ser missense_variant 0.13
Rv2752c 3064591 p.Arg534His missense_variant 0.14
thyA 3073806 c.666C>G synonymous_variant 0.25
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 0.97
fbiD 3339515 p.Arg133His missense_variant 0.12
Rv3083 3449273 p.Ala257Asp missense_variant 0.38
Rv3083 3449724 c.1221C>T synonymous_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474168 c.162G>A synonymous_variant 0.18
fprA 3474612 c.606G>A synonymous_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039548 p.Ala386Val missense_variant 0.12
embC 4241730 p.Ala623Asp missense_variant 0.15
embC 4242425 p.Arg855Gly missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246706 p.Gly65Ser missense_variant 0.2
embB 4246760 p.Val83Met missense_variant 0.13
ethA 4326688 p.Lys262Asn missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0