TB-Profiler result

Run: ERR2515392
Summary

Run ID: ERR2515392

Sample name:

Date: 31-03-2023 20:54:55

Number of reads: 277215

Percentage reads mapped: 99.62

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 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 5186 c.-54C>T upstream_gene_variant 0.1
gyrB 6321 p.Lys361Met missense_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8061 p.Arg254Cys missense_variant 1.0
gyrA 8129 p.Tyr276* stop_gained 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761803 p.Met666Lys missense_variant 0.1
rpoC 764161 c.792G>C synonymous_variant 0.12
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 1.0
mmpS5 778889 p.Lys6Arg missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471662 n.-184C>A upstream_gene_variant 0.12
rrs 1472273 n.431delA non_coding_transcript_exon_variant 0.12
rrl 1475063 n.1408delG non_coding_transcript_exon_variant 0.18
rrl 1475650 n.1993A>G non_coding_transcript_exon_variant 0.1
rpsA 1833385 c.-157G>A upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101902 p.Lys381* stop_gained 0.11
katG 2155106 c.1006C>T synonymous_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223297 c.-133G>T upstream_gene_variant 0.12
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714968 p.Glu122Val missense_variant 0.12
eis 2715366 c.-34C>G upstream_gene_variant 0.12
eis 2715484 c.-152G>C upstream_gene_variant 0.17
eis 2715534 c.-202C>A upstream_gene_variant 0.17
folC 2747066 p.Gly178Asp missense_variant 0.4
Rv2752c 3065848 p.Lys115Ile missense_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087443 c.624C>T synonymous_variant 0.1
ald 3087574 p.Asn252Ser missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474200 p.Lys65Arg missense_variant 0.14
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
Rv3236c 3613170 c.-54G>C upstream_gene_variant 0.17
fbiA 3641163 p.Asp207Glu missense_variant 0.17
alr 3841208 c.213T>C synonymous_variant 0.14
rpoA 3878360 p.Ala50Thr missense_variant 0.12
ddn 3987140 p.Gln99His missense_variant 0.1
clpC1 4040309 c.396C>A synonymous_variant 0.25
panD 4043986 p.Arg99His missense_variant 0.17
embC 4240169 p.Thr103Ala missense_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4245740 c.-774T>C upstream_gene_variant 0.29
aftB 4268276 c.561G>A synonymous_variant 0.11
ubiA 4269328 p.Lys169Thr missense_variant 0.17
ethA 4326752 p.Lys241Arg missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0