TB-Profiler result

Run: ERR2229485
Summary

Run ID: ERR2229485

Sample name:

Date: 31-03-2023 17:15:17

Number of reads: 1147399

Percentage reads mapped: 99.22

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 7593 p.Arg98Ser missense_variant 0.12
fgd1 491105 p.Gly108Val missense_variant 0.12
mshA 575387 p.Ala14Thr missense_variant 0.14
ccsA 620209 c.323delG frameshift_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775813 p.Phe890Val missense_variant 0.13
mmpL5 775817 c.2664T>C synonymous_variant 0.14
mmpL5 775820 c.2661G>A synonymous_variant 0.14
mmpL5 777482 c.999G>A synonymous_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305040 p.Ser704Pro missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475484 n.1827A>C non_coding_transcript_exon_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155191 c.921A>C synonymous_variant 0.12
PPE35 2167955 c.2658A>C synonymous_variant 0.11
PPE35 2167965 p.Ala883Gly missense_variant 0.47
PPE35 2167967 c.2646A>C synonymous_variant 0.47
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169272 c.1341C>G synonymous_variant 0.12
PPE35 2169278 c.1335T>C synonymous_variant 0.19
PPE35 2169281 c.1332T>G synonymous_variant 0.18
PPE35 2169902 c.711G>C synonymous_variant 0.14
PPE35 2170048 p.Leu189Val missense_variant 0.48
PPE35 2170053 p.Thr187Ser missense_variant 0.47
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518641 p.Glu176Gly missense_variant 0.12
kasA 2518798 c.684G>A synonymous_variant 0.17
kasA 2518897 c.783G>T synonymous_variant 0.2
kasA 2519128 c.1014G>C synonymous_variant 0.14
kasA 2519131 c.1017G>C synonymous_variant 0.14
kasA 2519140 c.1026G>C synonymous_variant 0.14
kasA 2519143 c.1029G>C synonymous_variant 0.14
eis 2714271 c.1062C>T synonymous_variant 0.12
ribD 2987220 p.Arg128Ser missense_variant 0.15
fbiD 3339444 p.Asn109Lys missense_variant 0.12
fbiD 3339523 c.406C>A synonymous_variant 0.13
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3475338 c.1332G>A synonymous_variant 0.14
Rv3236c 3613296 c.-180T>G upstream_gene_variant 0.12
Rv3236c 3613303 c.-187C>A upstream_gene_variant 0.13
alr 3841546 c.-126C>A upstream_gene_variant 0.22
clpC1 4039645 p.His354Asp missense_variant 0.13
clpC1 4039654 p.Thr351Ser missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242688 c.-545G>A upstream_gene_variant 0.15
embA 4244551 p.Ala440Asp missense_variant 0.22
embA 4244594 c.1362G>A synonymous_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.6
embB 4246555 c.42G>C synonymous_variant 0.67
embB 4246556 p.Ala15Pro missense_variant 0.67
embB 4246792 c.279C>T synonymous_variant 0.14
aftB 4268537 c.300G>T synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0