TB-Profiler result

Run: ERR4819837
Summary

Run ID: ERR4819837

Sample name:

Date: 01-04-2023 16:19:57

Number of reads: 878815

Percentage reads mapped: 99.41

Strain: lineage4.2

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
lineage4.2 Euro-American H;T;LAM None 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 7962 p.Gly221Arg missense_variant 0.11
gyrA 8125 p.Pro275Gln missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575693 p.Pro116Ser missense_variant 0.14
mshA 576077 c.730C>T synonymous_variant 1.0
rpoB 761191 p.Ala462Val missense_variant 0.14
rpoB 762793 p.Val996Ala missense_variant 0.1
rpoC 763888 c.519G>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304590 p.Phe554Leu missense_variant 0.13
Rv1258c 1406936 c.405A>G synonymous_variant 0.18
embR 1416817 c.531G>A synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673810 p.Ser124* stop_gained 0.12
tlyA 1917888 c.-52C>A upstream_gene_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154864 c.1248C>A synonymous_variant 0.4
PPE35 2167895 p.Asn906Lys missense_variant 0.18
PPE35 2168067 p.Phe849Ser missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714662 p.Ala224Glu missense_variant 0.14
folC 2746167 p.Ala478Ser missense_variant 0.15
folC 2746945 c.653delG frameshift_variant 0.13
folC 2747622 c.-24C>A upstream_gene_variant 0.15
ribD 2987420 c.582C>A synonymous_variant 0.12
Rv2752c 3066276 c.-85G>A upstream_gene_variant 1.0
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
thyX 3067971 c.-26T>C upstream_gene_variant 0.22
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339237 c.120G>C synonymous_variant 0.13
Rv3083 3448814 p.Val104Asp missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612389 p.Gly243Val missense_variant 0.2
Rv3236c 3612414 p.Ser235Pro missense_variant 0.13
Rv3236c 3612469 c.648A>G synonymous_variant 1.0
fbiA 3640781 p.Gly80Asp missense_variant 0.17
alr 3841600 c.-180G>C upstream_gene_variant 0.12
rpoA 3877481 c.1026delC frameshift_variant 0.11
rpoA 3878483 p.Leu9Met missense_variant 0.18
clpC1 4038200 c.2505T>C synonymous_variant 0.12
panD 4043885 p.Asp133Asn missense_variant 0.12
embC 4239972 p.Gly37Val missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244492 c.1260G>A synonymous_variant 0.13
embB 4245665 c.-849C>A upstream_gene_variant 0.25
aftB 4267751 p.Asp362Glu missense_variant 0.17
ubiA 4269907 c.-74T>A upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408464 c.-262G>T upstream_gene_variant 1.0