TB-Profiler result

Run: ERR2229341
Summary

Run ID: ERR2229341

Sample name:

Date: 31-03-2023 17:03:43

Number of reads: 1486636

Percentage reads mapped: 98.78

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 575249 c.-99G>T upstream_gene_variant 0.2
mshA 576108 p.Ala254Gly missense_variant 0.4
mshA 576496 p.Asp383Glu missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775813 p.Phe890Val missense_variant 0.18
mmpL5 775817 c.2664T>C synonymous_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303536 c.606G>A synonymous_variant 0.13
fbiC 1303614 c.684C>A synonymous_variant 0.14
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1416232 p.Cys372Gly missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673380 c.-60C>G upstream_gene_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102386 c.657G>T synonymous_variant 0.18
katG 2153970 p.Asp714Glu missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.46
PPE35 2170053 p.Thr187Ser missense_variant 0.42
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518864 c.750G>C synonymous_variant 0.12
kasA 2518879 c.765A>G synonymous_variant 0.22
kasA 2518882 c.768C>A synonymous_variant 0.15
kasA 2519143 c.1029G>C synonymous_variant 0.12
Rv3236c 3612797 p.Ala107Val missense_variant 0.15
alr 3841546 c.-126C>A upstream_gene_variant 0.16
rpoA 3878567 c.-60C>G upstream_gene_variant 0.67
clpC1 4038531 p.Glu725Gly missense_variant 0.11
clpC1 4040144 c.561G>C synonymous_variant 0.23
panD 4044377 c.-96G>A upstream_gene_variant 0.17
embA 4242511 c.-722G>C upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246347 p.Thr1039Ser missense_variant 0.12
embB 4246544 p.Thr11Pro missense_variant 0.24
embB 4246548 p.Pro12Gln missense_variant 0.52
embB 4246555 c.42G>C synonymous_variant 0.65
embB 4246556 p.Ala15Pro missense_variant 0.65
embB 4246563 p.Leu17Trp missense_variant 0.25
embB 4246567 c.54G>T synonymous_variant 0.25
embB 4246587 p.Gly25Glu missense_variant 0.17
ethR 4327712 p.Gly55Val missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0