TB-Profiler result

Run: ERR2229153
Summary

Run ID: ERR2229153

Sample name:

Date: 31-03-2023 16:44:49

Number of reads: 938960

Percentage reads mapped: 98.41

Strain: lineage4.8

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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 6178 c.941delG frameshift_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7827 p.Asn176Tyr missense_variant 0.14
rpoC 764360 p.Asp331Tyr missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776242 p.Lys747* stop_gained 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801194 p.Arg129Leu missense_variant 0.29
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304918 p.Thr663Asn missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673623 p.Val62Ile missense_variant 0.12
rpsA 1833392 c.-150C>A upstream_gene_variant 0.13
rpsA 1834681 p.Met380Ile missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.17
PPE35 2167865 c.2748G>C synonymous_variant 0.13
PPE35 2167868 c.2745A>C synonymous_variant 0.13
PPE35 2167965 p.Ala883Gly missense_variant 0.15
PPE35 2167967 c.2646A>C synonymous_variant 0.15
PPE35 2168728 p.Gly629Arg missense_variant 0.97
PPE35 2169287 c.1326T>C synonymous_variant 0.12
PPE35 2169293 c.1320T>C synonymous_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.52
PPE35 2170053 p.Thr187Ser missense_variant 0.48
Rv1979c 2223044 p.Gly41Arg missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289733 c.-492G>A upstream_gene_variant 0.12
kasA 2519128 c.1014G>C synonymous_variant 0.17
kasA 2519131 c.1017G>C synonymous_variant 0.17
kasA 2519165 p.Gly351Ser missense_variant 0.29
ahpC 2725931 c.-262T>A upstream_gene_variant 0.12
folC 2746845 p.Ala252Thr missense_variant 0.18
Rv2752c 3065802 p.Glu130Asp missense_variant 0.12
ald 3086822 c.3G>T start_lost 0.14
ald 3087701 c.882G>A synonymous_variant 0.12
whiB7 3568424 p.Pro86Ala missense_variant 0.2
Rv3236c 3612730 c.387C>T synonymous_variant 0.29
Rv3236c 3612761 p.Leu119His missense_variant 0.33
fbiA 3640558 p.Leu6Val missense_variant 0.2
fbiB 3640863 c.-672C>G upstream_gene_variant 0.12
alr 3841546 c.-126C>A upstream_gene_variant 0.17
clpC1 4039645 p.His354Asp missense_variant 0.11
clpC1 4040284 c.421C>T synonymous_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243041 p.Leu1060Ser missense_variant 0.12
embA 4244184 p.Ser318Leu missense_variant 0.18
embB 4246548 p.Pro12Gln missense_variant 0.25
embB 4246555 c.42G>C synonymous_variant 0.25
embB 4247124 p.Ala204Val missense_variant 0.25
embB 4249743 p.Gln1077Pro missense_variant 0.2
embB 4249772 p.Gly1087Ser missense_variant 0.13
aftB 4268826 p.Val4Gly missense_variant 0.2
whiB6 4338323 p.Val67Ile missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0