TB-Profiler result

Run: ERR2229200
Summary

Run ID: ERR2229200

Sample name:

Date: 31-03-2023 16:48:01

Number of reads: 568339

Percentage reads mapped: 99.13

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 8459 p.Glu386Asp missense_variant 0.12
gyrA 9804 p.Gln835* stop_gained 0.18
fgd1 490986 c.204G>T synonymous_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.43
mshA 576111 p.Ala255Gly missense_variant 0.4
mshA 576114 p.Arg256Pro missense_variant 0.67
rpoB 762172 p.Glu789Val missense_variant 0.2
rpoC 764454 p.Ala362Glu missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776375 c.2106A>G synonymous_variant 0.12
mmpL5 776381 c.2100C>T synonymous_variant 0.13
mmpL5 776384 c.2097C>A synonymous_variant 0.21
mmpL5 776387 c.2094T>C synonymous_variant 0.15
mmpL5 776393 c.2088C>T synonymous_variant 0.12
mmpL5 776397 p.Val695Ala missense_variant 0.13
mmpL5 776402 c.2079C>G synonymous_variant 0.14
mmpL5 776405 c.2076T>G synonymous_variant 0.12
mmpL5 776417 c.2064G>C synonymous_variant 0.12
mmpS5 778631 p.Leu92Ser missense_variant 0.25
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
rpsA 1833716 p.Thr59Ser missense_variant 0.12
rpsA 1833733 c.192C>T synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918482 c.543G>T synonymous_variant 0.2
PPE35 2167865 c.2748G>C synonymous_variant 0.3
PPE35 2167868 c.2745A>C synonymous_variant 0.3
PPE35 2167906 p.Ile903Leu missense_variant 0.25
PPE35 2167981 p.Gly878* stop_gained 0.29
PPE35 2168554 p.Ile687Leu missense_variant 0.18
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169269 c.1344A>G synonymous_variant 0.17
PPE35 2169272 c.1341C>G synonymous_variant 0.15
PPE35 2169278 c.1335T>C synonymous_variant 0.36
PPE35 2169281 c.1332T>G synonymous_variant 0.36
PPE35 2169287 c.1326T>C synonymous_variant 0.2
PPE35 2170048 p.Leu189Val missense_variant 0.13
PPE35 2170372 p.Thr81Ala missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289098 p.Lys48Asn missense_variant 0.18
kasA 2518707 p.Val198Gly missense_variant 0.22
kasA 2518933 p.Asp273Glu missense_variant 0.18
kasA 2519189 p.Val359Met missense_variant 0.2
thyX 3067204 p.Thr248Ser missense_variant 0.18
thyX 3067995 c.-50A>C upstream_gene_variant 0.21
ald 3086650 c.-170C>G upstream_gene_variant 0.2
whiB7 3568430 p.Gly84Arg missense_variant 0.29
alr 3841612 c.-193_-192insC upstream_gene_variant 0.19
clpC1 4039526 c.1179G>C synonymous_variant 0.15
panD 4044201 c.81C>A synonymous_variant 0.25
embC 4239855 c.-8A>G upstream_gene_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246373 c.-141T>C upstream_gene_variant 0.14
embB 4246548 p.Pro12Gln missense_variant 0.25
embB 4246555 c.42G>C synonymous_variant 0.29
embB 4246556 p.Ala15Pro missense_variant 0.29
embB 4247136 p.Thr208Ser missense_variant 0.33
aftB 4268560 p.Leu93Met missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407613 p.Arg197His missense_variant 0.17
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0