TB-Profiler result

Run: ERR2229640
Summary

Run ID: ERR2229640

Sample name:

Date: 31-03-2023 17:23:15

Number of reads: 1455134

Percentage reads mapped: 99.17

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 0.35
mshA 576488 p.Val381Leu missense_variant 0.11
rpoB 761152 p.Leu449Gln missense_variant 0.15
rpoC 764163 p.Ile265Thr missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777136 p.Met449Leu missense_variant 0.11
mmpL5 777141 p.Val447Ala missense_variant 0.11
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
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 p.Leu237Phe missense_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.38
PPE35 2170053 p.Thr187Ser missense_variant 0.38
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518609 p.Met165Ile missense_variant 0.12
eis 2715057 c.276C>T synonymous_variant 0.11
eis 2715060 p.His91Lys missense_variant 0.11
eis 2715065 p.Thr90Ala missense_variant 0.11
alr 3841546 c.-126C>A upstream_gene_variant 0.23
clpC1 4040144 c.561G>C synonymous_variant 0.16
clpC1 4040155 p.Glu184* stop_gained 0.14
clpC1 4040302 p.Arg135Ser missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.23
embB 4246548 p.Pro12Gln missense_variant 0.27
embB 4246555 c.42G>C synonymous_variant 0.29
embB 4246556 p.Ala15Pro missense_variant 0.29
embB 4246563 p.Leu17Trp missense_variant 0.29
aftB 4267882 p.Gly319Cys missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0