TB-Profiler result

Run: ERR11050087
Summary

Run ID: ERR11050087

Sample name:

Date: 02-04-2023 11:04:25

Number of reads: 3769352

Percentage reads mapped: 99.62

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 9647 c.2346C>G synonymous_variant 0.26
mshA 576113 p.Arg256Gly missense_variant 0.42
mshA 576442 p.Cys365Trp missense_variant 0.25
mshA 576456 p.Val370Gly missense_variant 0.36
mshA 576606 p.Ala420Gly missense_variant 0.24
mshA 576609 p.Ala421Gly missense_variant 0.24
mshA 576616 c.1269G>C synonymous_variant 0.43
mshA 576618 p.His424Pro missense_variant 0.25
rpoB 760975 p.Met390Thr missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.27
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 1475090 n.1433A>C non_coding_transcript_exon_variant 1.0
rrl 1476058 n.2401T>G non_coding_transcript_exon_variant 0.22
fabG1 1673553 p.Asp38Glu missense_variant 0.38
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102817 p.Leu76Val missense_variant 0.14
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170035 p.Val193Gly missense_variant 0.2
PPE35 2170041 p.Thr191Arg missense_variant 0.24
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.27
pepQ 2859933 c.486C>G synonymous_variant 0.18
pepQ 2860159 p.Ala87Gly missense_variant 0.19
ribD 2987498 c.660C>G synonymous_variant 0.19
Rv2752c 3064823 p.Val457Leu missense_variant 0.17
Rv2752c 3065602 p.Asp197Gly missense_variant 0.27
thyX 3067944 p.Val1Gly missense_variant 0.22
ald 3086767 c.-53A>C upstream_gene_variant 1.0
ald 3087816 p.Cys333Gly missense_variant 0.19
fbiD 3339751 p.Ala212Pro missense_variant 0.25
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568431 c.249C>G synonymous_variant 0.33
rpoA 3878580 c.-73A>C upstream_gene_variant 0.33
rpoA 3878587 c.-80T>A upstream_gene_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.77
embC 4240409 p.Pro183Ala missense_variant 0.35
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243682 c.450T>G synonymous_variant 0.29
embA 4244990 c.1758G>C synonymous_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.28
embB 4247016 p.Ser168Trp missense_variant 0.28
embB 4247020 c.507C>G synonymous_variant 0.33
embB 4247024 p.Pro171Ala missense_variant 0.14
embB 4248328 c.1815G>C synonymous_variant 0.32
aftB 4267715 c.1122G>A synonymous_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0