TB-Profiler result

Run: ERR2229365
Summary

Run ID: ERR2229365

Sample name:

Date: 31-03-2023 17:06:58

Number of reads: 1253196

Percentage reads mapped: 98.77

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
mshA 576311 p.Ser322Pro missense_variant 0.17
rpoB 760526 p.Glu240Asp missense_variant 0.12
rpoB 761246 c.1440C>T synonymous_variant 0.11
rpoC 764253 p.Arg295Leu missense_variant 0.12
rpoC 764375 p.Ala336Pro missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
embR 1417449 c.-102C>T upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472514 n.669T>A non_coding_transcript_exon_variant 0.33
rrs 1473160 n.1315G>A non_coding_transcript_exon_variant 0.2
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475127 n.1470G>A non_coding_transcript_exon_variant 0.12
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.15
fabG1 1673349 c.-91G>C upstream_gene_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
rpsA 1833392 c.-150C>A upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154675 c.1437G>A synonymous_variant 0.12
katG 2154828 c.1284G>T synonymous_variant 0.14
PPE35 2168559 p.Ala685Asp missense_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169013 p.Val534Leu missense_variant 0.17
PPE35 2169122 c.1491C>G synonymous_variant 0.17
PPE35 2169281 c.1332T>G synonymous_variant 0.1
PPE35 2170048 p.Leu189Val missense_variant 0.74
PPE35 2170053 p.Thr187Ser missense_variant 0.76
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518418 p.Glu102* stop_gained 0.13
kasA 2519140 c.1026G>C synonymous_variant 0.17
kasA 2519143 c.1029G>C synonymous_variant 0.15
kasA 2519153 p.Ile347Val missense_variant 0.25
eis 2714258 p.Leu359Ile missense_variant 0.12
eis 2714297 p.Ala346Pro missense_variant 0.13
eis 2714362 p.Ser324Tyr missense_variant 0.12
ahpC 2726456 p.Asp88Glu missense_variant 0.11
folC 2746764 p.Leu279Met missense_variant 0.12
folC 2747542 c.57C>T synonymous_variant 0.17
pepQ 2859795 c.624C>T synonymous_variant 0.12
ribD 2986988 p.Asp50Glu missense_variant 0.17
Rv2752c 3064824 p.Asp456Glu missense_variant 0.22
Rv2752c 3066303 c.-112C>T upstream_gene_variant 0.13
thyX 3067340 c.606G>A synonymous_variant 0.17
thyX 3068015 c.-70T>G upstream_gene_variant 0.11
ald 3087850 p.Ser344Leu missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3236c 3612428 p.Ala230Glu missense_variant 0.25
Rv3236c 3613061 p.Ala19Gly missense_variant 0.14
fbiB 3641540 c.6C>T synonymous_variant 0.12
clpC1 4038169 p.Ala846Pro missense_variant 0.14
clpC1 4038174 p.Glu844Gly missense_variant 0.14
clpC1 4038879 p.Gln609Leu missense_variant 0.12
clpC1 4039399 p.Glu436Lys missense_variant 0.14
clpC1 4039829 p.Leu292Phe missense_variant 0.12
clpC1 4040044 p.Gly221Cys missense_variant 0.12
clpC1 4040473 p.Ile78Phe missense_variant 0.2
embC 4241084 p.Leu408Met missense_variant 0.12
embC 4241402 p.Asp514Asn missense_variant 0.12
embC 4241877 p.Val672Glu missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242761 p.Arg967Trp missense_variant 0.13
embA 4244597 c.1365G>A synonymous_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.22
embB 4246548 p.Pro12Gln missense_variant 0.72
embB 4246555 c.42G>C synonymous_variant 0.81
embB 4246556 p.Ala15Pro missense_variant 0.81
embB 4246563 p.Leu17Trp missense_variant 0.38
embB 4246567 c.54G>T synonymous_variant 0.29
aftB 4267774 p.Ile355Phe missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407590 p.Ala205Ser missense_variant 0.14
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0