TB-Profiler result

Run: ERR2229208
Summary

Run ID: ERR2229208

Sample name:

Date: 31-03-2023 16:48:42

Number of reads: 654319

Percentage reads mapped: 99.62

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
rpoB 759615 c.-192A>C upstream_gene_variant 0.3
rpoB 760892 p.Asp362Glu missense_variant 0.17
rpoB 760928 c.1122G>A synonymous_variant 0.11
rpoC 764057 p.Ala230Thr missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1417298 p.Gly17Glu missense_variant 0.13
atpE 1461108 p.Ile22Leu missense_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.19
fabG1 1673349 c.-91G>C upstream_gene_variant 0.19
fabG1 1673357 c.-83G>A upstream_gene_variant 0.19
fabG1 1673359 c.-81T>C upstream_gene_variant 0.21
fabG1 1673361 c.-79C>G upstream_gene_variant 0.21
fabG1 1673380 c.-60C>G upstream_gene_variant 0.12
inhA 1674459 c.258C>T synonymous_variant 0.15
rpsA 1834876 c.1335G>A synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170392 p.Gly74Ala missense_variant 0.11
PPE35 2170400 c.213G>C synonymous_variant 0.12
PPE35 2170412 c.201G>A synonymous_variant 0.29
PPE35 2170415 c.198A>G synonymous_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747154 p.Met149Val missense_variant 0.11
Rv2752c 3065193 c.999C>A synonymous_variant 0.12
thyX 3068001 c.-56G>T upstream_gene_variant 0.15
fprA 3474443 p.Ser146* stop_gained 0.11
fprA 3474592 p.Ile196Phe missense_variant 0.14
fprA 3475166 p.Gly387Val missense_variant 0.12
Rv3236c 3612437 p.Leu227Ser missense_variant 0.1
clpC1 4039561 p.Ala382Ser missense_variant 0.15
embC 4242264 p.Glu801Gly missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4245722 c.-792C>T upstream_gene_variant 0.11
embB 4246555 c.42G>C synonymous_variant 0.19
embB 4246556 p.Ala15Pro missense_variant 0.19
embB 4246563 p.Leu17Trp missense_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407752 p.Pro151Ser missense_variant 0.12
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0