TB-Profiler result

Run: ERR2503380
Summary

Run ID: ERR2503380

Sample name:

Date: 31-03-2023 18:25:30

Number of reads: 329328

Percentage reads mapped: 99.76

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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 9304 p.Gly668Asp missense_variant 1.0
gyrA 9788 c.2487C>T synonymous_variant 0.18
fgd1 491027 p.Asn82Thr missense_variant 0.25
mshA 576139 c.792C>T synonymous_variant 0.22
ccsA 619831 c.-60T>G upstream_gene_variant 0.3
ccsA 620748 c.858T>G synonymous_variant 0.15
rpoB 761719 p.Ala638Asp missense_variant 0.12
rpoC 765868 c.2499G>T synonymous_variant 0.1
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303247 p.Thr106Arg missense_variant 0.12
fbiC 1303251 c.321C>T synonymous_variant 0.12
fbiC 1305471 c.2541C>T synonymous_variant 0.12
embR 1416808 c.540C>A synonymous_variant 0.13
atpE 1461153 p.Ser37Pro missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673418 c.-22G>A upstream_gene_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102846 p.Gly66Val missense_variant 0.2
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2155824 c.288C>A synonymous_variant 0.12
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714531 p.Ile268Leu missense_variant 0.12
eis 2715294 p.Trp13* stop_gained 0.1
ribD 2987163 p.Arg109* stop_gained 0.22
Rv2752c 3064870 p.Ala441Gly missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474562 c.556C>T synonymous_variant 0.13
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
alr 3840739 p.Arg228Trp missense_variant 0.12
ddn 3987063 p.Ile74Val missense_variant 1.0
embC 4239860 c.-3G>T upstream_gene_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244583 p.Gly451Arg missense_variant 1.0
embB 4246635 c.124delG frameshift_variant 0.1
aftB 4267582 p.Gly419Trp missense_variant 0.2
ubiA 4270022 c.-189C>A upstream_gene_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0