TB-Profiler result

Run: ERR4819794
Summary

Run ID: ERR4819794

Sample name:

Date: 01-04-2023 16:18:33

Number of reads: 713573

Percentage reads mapped: 99.76

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
ccsA 619818 c.-73G>A upstream_gene_variant 0.17
ccsA 619831 c.-60T>G upstream_gene_variant 0.33
rpoB 762275 c.2469C>T synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775689 p.Ala931Val missense_variant 0.11
mmpL5 777157 c.1324C>A synonymous_variant 0.11
mmpL5 777164 c.1317C>T synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304136 c.1206C>G synonymous_variant 0.33
fbiC 1305407 p.Ser826Leu missense_variant 0.12
Rv1258c 1406539 p.Ala268Thr missense_variant 0.1
Rv1258c 1407479 c.-139A>G upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674693 c.492C>G synonymous_variant 0.11
inhA 1674703 c.502T>C synonymous_variant 0.11
rpsA 1834185 p.Val215Asp missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169985 p.Ala210Thr missense_variant 0.11
PPE35 2170327 p.Glu96Lys missense_variant 1.0
Rv1979c 2222116 p.Met350Thr missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289141 p.Tyr34Phe missense_variant 0.22
kasA 2518329 p.Met72Thr missense_variant 1.0
kasA 2519281 c.1167G>A synonymous_variant 1.0
thyA 3074633 c.-163delG upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3236c 3612237 p.Ala294Thr missense_variant 0.22
fbiA 3641311 p.Asp257Asn missense_variant 0.13
fbiB 3641884 p.Glu117Gly missense_variant 0.14
rpoA 3878354 p.Thr52Ser missense_variant 0.18
clpC1 4039645 p.His354Asp missense_variant 0.11
clpC1 4039654 p.Thr351Ser missense_variant 0.11
clpC1 4039805 c.900C>T synonymous_variant 0.2
embC 4240648 c.786C>T synonymous_variant 0.2
embC 4242422 p.Trp854Gly missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0