TB-Profiler result

Run: ERR841400
Summary

Run ID: ERR841400

Sample name:

Date: 15-08-2022 10:24:06

Number of reads: 6095384

Percentage reads mapped: 73.6

Strain: lineage4.8

Drug-resistance: Other

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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
gid 4408100 c.102delG frameshift_variant 1.0 streptomycin
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
fgd1 491027 p.Asn82Thr missense_variant 0.14
rpoC 762836 c.-534C>G upstream_gene_variant 0.28
rpoC 764725 p.Phe452Leu missense_variant 0.19
rpoC 764751 p.Val461Gly missense_variant 0.26
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776206 p.Gly759Cys missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304136 c.1206C>G synonymous_variant 0.21
Rv1258c 1406750 c.591C>A synonymous_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673420 c.-20C>G upstream_gene_variant 0.28
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167871 c.2742G>C synonymous_variant 0.13
PPE35 2170042 p.Thr191Ala missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987307 p.Ala157Pro missense_variant 0.13
ribD 2987392 p.Arg185Pro missense_variant 0.17
Rv2752c 3064552 p.Arg547Pro missense_variant 0.22
Rv2752c 3064741 p.Gly484Ala missense_variant 0.3
Rv2752c 3065265 c.927C>G synonymous_variant 0.19
fbiD 3339273 c.156T>G synonymous_variant 0.16
fbiD 3339550 p.Gly145Trp missense_variant 0.12
fbiB 3641955 p.Gly141Arg missense_variant 0.13
fbiB 3642772 p.Asp413Ala missense_variant 0.13
alr 3840764 c.657G>C synonymous_variant 1.0
alr 3841517 c.-97G>A upstream_gene_variant 1.0
clpC1 4039363 p.Ala448Pro missense_variant 0.14
clpC1 4040233 p.Arg158Gly missense_variant 0.2
embC 4240355 p.Ala165Pro missense_variant 0.23
embC 4241056 c.1194C>G synonymous_variant 0.12
embC 4241456 p.Ala532Pro missense_variant 0.28
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.25
embB 4249403 p.Thr964Pro missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0