TB-Profiler result

Run: ERR11049975
Summary

Run ID: ERR11049975

Sample name:

Date: 02-04-2023 05:39:16

Number of reads: 4061565

Percentage reads mapped: 99.62

Strain: lineage4.8

Drug-resistance: HR-TB

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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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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
gyrA 9647 c.2346C>G synonymous_variant 0.2
fgd1 491315 p.Gly178Ala missense_variant 0.16
mshA 576113 p.Arg256Gly missense_variant 0.25
mshA 576442 p.Cys365Trp missense_variant 0.24
mshA 576616 c.1269G>C synonymous_variant 0.2
rpoC 764367 p.Gly333Ala missense_variant 0.3
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.36
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
fabG1 1673553 p.Asp38Glu missense_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170037 c.576C>G synonymous_variant 0.23
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.3
Rv2752c 3064823 p.Val457Leu missense_variant 0.17
ald 3087816 p.Cys333Gly missense_variant 0.2
fbiD 3339734 p.Ala206Gly missense_variant 0.78
fbiD 3339751 p.Ala212Pro missense_variant 0.5
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568425 c.255T>C synonymous_variant 0.25
whiB7 3568428 c.252A>C synonymous_variant 0.22
whiB7 3568431 c.249C>G synonymous_variant 0.17
rpoA 3878597 c.-90G>C upstream_gene_variant 0.67
rpoA 3878641 c.-134C>G upstream_gene_variant 0.6
embC 4239930 p.Gly23Glu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.61
embB 4247016 p.Ser168Trp missense_variant 0.26
embB 4247020 c.507C>G synonymous_variant 0.24
embB 4248328 c.1815G>C synonymous_variant 0.35
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0