TB-Profiler result

Run: ERR2229291
Summary

Run ID: ERR2229291

Sample name:

Date: 31-03-2023 16:57:51

Number of reads: 1151770

Percentage reads mapped: 99.17

Strain: lineage4.8

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
lineage4.8 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 7966 p.Arg222Leu missense_variant 0.15
mshA 576108 p.Ala254Gly missense_variant 0.25
mshA 576745 c.1398G>C synonymous_variant 0.17
mshA 576752 p.Pro469Ala missense_variant 0.17
ccsA 620017 p.Gly43Arg missense_variant 0.2
ccsA 620658 c.768C>T synonymous_variant 0.11
rpoC 766790 p.Val1141Ile missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776009 c.2472A>G synonymous_variant 0.18
mmpL5 776021 c.2460G>C synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_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 1673380 c.-60C>G upstream_gene_variant 0.23
inhA 1674879 c.678T>G synonymous_variant 0.15
rpsA 1834287 p.Ser249Tyr missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155235 c.877C>T synonymous_variant 0.18
PPE35 2167814 c.2799C>T synonymous_variant 0.17
PPE35 2167965 p.Ala883Gly missense_variant 0.2
PPE35 2167967 c.2646A>C synonymous_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169287 c.1326T>C synonymous_variant 0.15
PPE35 2169293 c.1320T>C synonymous_variant 0.13
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.38
PPE35 2170053 p.Thr187Ser missense_variant 0.38
PPE35 2170392 p.Gly74Ala missense_variant 0.13
PPE35 2170400 c.213G>C synonymous_variant 0.13
PPE35 2170540 c.73C>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746660 c.938delT frameshift_variant 0.25
folC 2746906 c.693C>T synonymous_variant 0.15
folC 2747022 p.Val193Ile missense_variant 0.13
folC 2747107 c.492G>C synonymous_variant 0.12
ribD 2987251 c.415delG frameshift_variant 0.4
ribD 2987400 p.Arg188Cys missense_variant 0.11
Rv2752c 3064567 p.Gly542Ala missense_variant 0.17
Rv2752c 3065834 p.Arg120Ser missense_variant 0.18
thyX 3067270 p.Val226Met missense_variant 0.15
thyA 3073709 p.Pro255Thr missense_variant 0.13
whiB7 3568424 p.Pro86Ala missense_variant 0.18
fbiA 3641473 p.Thr311Ala missense_variant 0.12
fbiB 3641508 c.-27C>T upstream_gene_variant 0.15
fbiB 3642296 p.Gln254His missense_variant 0.17
fbiB 3642874 p.Leu447Pro missense_variant 0.13
clpC1 4039003 p.Asn568Asp missense_variant 0.13
clpC1 4039645 p.His354Asp missense_variant 0.16
clpC1 4039730 c.975C>G synonymous_variant 0.12
clpC1 4040143 p.Asp188Tyr missense_variant 0.2
clpC1 4040144 c.561G>C synonymous_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246492 p.Pro1087Leu missense_variant 0.12
aftB 4267702 p.Trp379Arg missense_variant 0.13
aftB 4267805 c.1032T>C synonymous_variant 0.17
aftB 4267950 p.Pro296Leu missense_variant 0.18
ubiA 4269344 p.Gly164Arg missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408387 c.-185A>T upstream_gene_variant 0.13
gid 4408442 c.-240G>T upstream_gene_variant 0.11
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0