TB-Profiler result

Run: SRR6896214
Summary

Run ID: SRR6896214

Sample name:

Date: 04-04-2023 17:58:59

Number of reads: 383043

Percentage reads mapped: 99.6

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 1.0
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
mshA 575752 c.405G>C synonymous_variant 0.12
mshA 576416 p.Leu357Met missense_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778422 p.Ala20Val missense_variant 0.14
mmpS5 779597 c.-693delA upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304416 p.Leu496Phe missense_variant 0.11
fbiC 1304954 p.Glu675Val missense_variant 0.1
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
tlyA 1918271 p.Ala111Val missense_variant 0.14
ndh 2103026 p.Glu6Val missense_variant 0.11
katG 2154362 p.Phe584Leu missense_variant 0.11
katG 2156279 c.-168G>A upstream_gene_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087652 p.Ser278* stop_gained 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612164 p.Val318Gly missense_variant 0.11
fbiB 3642602 c.1068A>G synonymous_variant 0.12
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242134 p.Glu758Lys missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244289 p.Gly353Trp missense_variant 0.1
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.25
embB 4246556 p.Ala15Pro missense_variant 0.25
aftB 4267577 c.1260C>T synonymous_variant 0.11
ubiA 4269833 c.1A>T initiator_codon_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407533 p.Ala224Pro missense_variant 0.15
gid 4407605 p.Ala200Thr missense_variant 0.1
gid 4407777 c.426G>A synonymous_variant 0.11
gid 4408156 p.Leu16Arg missense_variant 1.0