TB-Profiler result

Run: SRR6896337
Summary

Run ID: SRR6896337

Sample name:

Date: 04-04-2023 18:02:53

Number of reads: 645080

Percentage reads mapped: 99.5

Strain: lineage4.4.2

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.2 Euro-American T1;T2 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764459 p.Glu364Lys missense_variant 0.14
rpoC 764541 p.Val391Gly missense_variant 0.1
rpoC 764543 p.Thr392Ala missense_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777126 p.Ser452Ile missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304973 c.2043C>A synonymous_variant 0.13
fbiC 1305015 c.2085G>A synonymous_variant 0.18
Rv1258c 1406442 p.Leu300Ser missense_variant 0.13
Rv1258c 1406503 p.Val280Leu missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155630 p.Trp161Leu missense_variant 0.15
PPE35 2167727 c.2886C>T synonymous_variant 0.11
PPE35 2168389 p.Gln742Lys missense_variant 0.13
PPE35 2168578 p.Phe679Leu missense_variant 0.11
PPE35 2168757 p.Gln619Arg missense_variant 1.0
PPE35 2170143 p.Gly157Val missense_variant 0.12
PPE35 2170579 p.Ser12Pro missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746681 c.918C>A synonymous_variant 0.13
folC 2747171 p.Gly143Asp missense_variant 0.1
ribD 2987500 p.Gly221Ala missense_variant 0.11
Rv2752c 3065681 p.Ile171Val missense_variant 0.14
Rv2752c 3066099 p.Met31Ile missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448348 c.-156G>A upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612286 c.830delG frameshift_variant 0.15
Rv3236c 3612568 c.549G>A synonymous_variant 0.12
alr 3840212 c.1209C>T synonymous_variant 1.0
rpoA 3878553 c.-46C>G upstream_gene_variant 0.5
clpC1 4038198 p.Gly836Glu missense_variant 0.11
embC 4242316 p.Ser818Arg missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243531 p.Thr100Ser missense_variant 0.17
embA 4244862 p.Leu544Met missense_variant 0.33
embA 4245807 p.Leu859Val missense_variant 0.18
embB 4246508 c.-6G>A upstream_gene_variant 1.0
embB 4246856 c.352_354delGTC conservative_inframe_deletion 0.1
embB 4247249 p.Gly246Arg missense_variant 1.0
embB 4249434 p.Leu974Gln missense_variant 0.12
aftB 4268011 c.820_825delGTGCCG conservative_inframe_deletion 0.12
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
ubiA 4269542 p.Pro98Thr missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408251 c.-49T>A upstream_gene_variant 0.11