TB-Profiler result

Run: SRR2101393
Summary

Run ID: SRR2101393

Sample name:

Date: 03-04-2023 23:41:27

Number of reads: 650974

Percentage reads mapped: 99.27

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 0.98
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.96
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 576725 p.Ile460Val missense_variant 0.1
rpoC 763031 c.-339T>C upstream_gene_variant 0.15
rpoC 766050 p.Glu894Gly missense_variant 0.96
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775757 c.2724C>A synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_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
inhA 1674524 p.Phe108Tyr missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154538 p.Gln525Ser missense_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.92
PPE35 2168291 p.Leu774Phe missense_variant 0.11
PPE35 2169097 c.1515delG frameshift_variant 0.11
PPE35 2169149 c.1464G>C synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746335 p.Gly422Cys missense_variant 0.11
ald 3087146 c.327T>C synonymous_variant 0.11
fbiD 3339046 c.-72G>T upstream_gene_variant 0.1
fbiD 3339397 p.Thr94Ser missense_variant 0.11
whiB7 3568541 p.Pro47Ser missense_variant 0.11
fbiA 3640397 c.-146G>A upstream_gene_variant 0.12
fbiB 3641991 p.Gly153* stop_gained 0.11
clpC1 4039729 p.Asp326Asn missense_variant 0.86
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244806 p.Leu525Pro missense_variant 0.67
embA 4245042 p.Thr604Ala missense_variant 0.1
embB 4246722 p.Pro70Gln missense_variant 0.11
embB 4249702 c.3189C>A synonymous_variant 0.22
aftB 4267417 p.Pro474Thr missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0