TB-Profiler result

Run: ERR2229639
Summary

Run ID: ERR2229639

Sample name:

Date: 31-03-2023 17:22:55

Number of reads: 1729619

Percentage reads mapped: 98.73

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
mshA 576108 p.Ala254Gly missense_variant 0.23
mshA 576482 p.Val379Leu missense_variant 0.18
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102408 p.Ile212Thr missense_variant 0.1
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.16
PPE35 2169281 c.1332T>G synonymous_variant 0.22
PPE35 2169287 c.1326T>C synonymous_variant 0.17
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2169910 p.Asn235Tyr missense_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.33
PPE35 2170053 p.Thr187Ser missense_variant 0.35
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
alr 3841612 c.-193_-192insC upstream_gene_variant 0.16
clpC1 4039645 p.His354Asp missense_variant 0.12
clpC1 4040144 c.561G>C synonymous_variant 0.21
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246557 p.Ala15Gly missense_variant 0.21
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0