TB-Profiler result

Run: ERR2229613
Summary

Run ID: ERR2229613

Sample name:

Date: 18-08-2022 10:20:43

Number of reads: 658112

Percentage reads mapped: 99.08

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
gyrB 6135 p.Glu299Gly missense_variant 0.2
gyrB 6461 p.Asn408Tyr missense_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7922 p.Asn207Lys missense_variant 0.2
fgd1 491588 p.Glu269Val missense_variant 0.2
rpoB 759873 p.Asn23Asp missense_variant 0.11
rpoB 760526 p.Glu240Asp missense_variant 0.12
rpoC 766230 p.Ala954Asp missense_variant 0.14
rpoC 766315 c.2946C>A synonymous_variant 0.15
mmpR5 778999 p.Asn4Asp missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781721 c.162C>T synonymous_variant 0.12
rpsL 781854 p.Arg99Ser missense_variant 0.2
fbiC 1302785 c.-146A>T upstream_gene_variant 0.12
fbiC 1303261 p.Pro111Ala missense_variant 0.15
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473932 n.275C>T non_coding_transcript_exon_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475958 n.2301C>G non_coding_transcript_exon_variant 0.14
fabG1 1673380 c.-60C>G upstream_gene_variant 0.19
rpsA 1834496 p.Gly319Arg missense_variant 0.13
rpsA 1834534 c.993C>T synonymous_variant 0.18
rpsA 1834543 c.1002C>A synonymous_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156535 c.-424C>A upstream_gene_variant 0.17
kasA 2518857 p.Ile248Thr missense_variant 0.13
eis 2714311 p.Thr341Ile missense_variant 0.15
pepQ 2860200 c.219G>A synonymous_variant 0.13
pepQ 2860201 c.216_217delAG frameshift_variant 0.14
pepQ 2860207 c.211_212insGCGCGC conservative_inframe_insertion 0.14
thyA 3073691 p.Val261Ile missense_variant 0.13
thyA 3073718 p.Asp252Asn missense_variant 0.14
ald 3087837 p.Ala340Ser missense_variant 0.2
fbiA 3640910 p.Tyr123Cys missense_variant 0.14
fbiB 3641973 p.Val147Phe missense_variant 0.15
fbiB 3642074 c.540C>A synonymous_variant 0.2
fbiB 3642757 p.Val408Ala missense_variant 0.17
alr 3841546 c.-126C>A upstream_gene_variant 0.27
embC 4240220 p.Gly120Trp missense_variant 0.18
embC 4241439 p.Ser526Ile missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243411 p.Ala60Val missense_variant 0.15
embA 4244444 c.1212G>T synonymous_variant 0.15
embB 4247512 c.999T>C synonymous_variant 0.13
embB 4247516 p.Asn335Asp missense_variant 0.14
embB 4248474 p.Val654Glu missense_variant 0.13
ethA 4326159 p.Val439Leu missense_variant 0.17
ethA 4328304 c.-831A>G upstream_gene_variant 0.13
gid 4407832 p.Val124Glu missense_variant 0.15
gid 4408297 c.-95G>T upstream_gene_variant 0.12