TB-Profiler result

Run: SRR1002679
Summary

Run ID: SRR1002679

Sample name:

Date: 02-04-2023 14:19:29

Number of reads: 2058469

Percentage reads mapped: 99.32

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
gyrA 9796 p.Gly832Ala missense_variant 1.0
fgd1 490677 c.-105_-104delCA upstream_gene_variant 0.11
fgd1 490690 c.-93C>A upstream_gene_variant 0.12
fgd1 491122 p.Ile114Val missense_variant 0.12
mshA 575306 c.-42T>C upstream_gene_variant 0.13
mshA 575308 c.-40A>G upstream_gene_variant 0.12
mshA 575372 p.Gly9Ser missense_variant 0.13
mshA 575831 p.Gly162Cys missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
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
rrl 1475075 n.1418A>C non_coding_transcript_exon_variant 0.35
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169110 c.1503T>C synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289584 c.-343A>G upstream_gene_variant 0.12
kasA 2518879 c.765A>G synonymous_variant 0.11
kasA 2518882 c.768C>A synonymous_variant 0.1
kasA 2519041 c.927C>T synonymous_variant 0.15
Rv3236c 3613242 c.-126G>T upstream_gene_variant 0.13
alr 3841612 c.-193_-192insC upstream_gene_variant 0.11
rpoA 3877704 c.804G>C synonymous_variant 1.0
panD 4044237 c.45G>A synonymous_variant 0.25
embC 4241372 p.Arg504Gly missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243127 p.Ala1089Thr missense_variant 0.12
embB 4246548 p.Pro12Gln missense_variant 0.1
embB 4246555 c.42G>C synonymous_variant 0.12
embB 4246556 p.Ala15Pro missense_variant 0.12
embB 4247170 c.657G>T synonymous_variant 0.15
aftB 4268226 p.Ala204Val missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0