TB-Profiler result

Run: ERR2517315
Summary

Run ID: ERR2517315

Sample name:

Date: 31-03-2023 22:06:45

Number of reads: 2162169

Percentage reads mapped: 99.5

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 5724 p.Ala162Gly missense_variant 0.11
gyrA 6583 c.-719G>A upstream_gene_variant 0.11
gyrA 7296 c.-6G>T upstream_gene_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7481 p.Phe60Leu missense_variant 0.12
mshA 575401 c.54G>T synonymous_variant 0.25
mshA 576488 p.Val381His missense_variant 0.2
rpoB 760407 p.Ser201Cys missense_variant 0.12
rpoC 764343 p.Arg325His missense_variant 0.17
rpoC 764352 p.Val328Ala missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776620 p.Leu621Val missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302983 p.Pro18Leu missense_variant 1.0
embR 1416379 c.969C>A synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471876 n.31G>T non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1476290 n.2633C>T non_coding_transcript_exon_variant 0.22
fabG1 1673380 c.-60C>G upstream_gene_variant 0.13
inhA 1674906 c.705G>A synonymous_variant 0.18
rpsA 1833673 c.135dupA frameshift_variant 0.15
rpsA 1833870 p.Glu110Gly missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102109 p.Pro312Ser missense_variant 0.15
katG 2153906 p.Arg736Trp missense_variant 0.13
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169157 p.Thr486Ser missense_variant 0.18
PPE35 2169677 c.936C>G synonymous_variant 0.1
PPE35 2170048 p.Leu189Val missense_variant 0.61
PPE35 2170053 p.Thr187Ser missense_variant 0.61
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518874 p.Ala254Ser missense_variant 0.12
kasA 2518929 p.Ser272Leu missense_variant 0.17
ahpC 2726306 c.114C>A synonymous_variant 0.12
pepQ 2859331 p.Thr363Ile missense_variant 1.0
Rv2752c 3065230 p.Gly321Val missense_variant 0.17
thyX 3068147 c.-202C>A upstream_gene_variant 0.1
fprA 3474627 p.Phe207Leu missense_variant 0.14
whiB7 3568879 c.-201_-200insC upstream_gene_variant 0.12
alr 3841023 c.396_397dupGT frameshift_variant 0.11
clpC1 4039729 p.Asp326Asn missense_variant 1.0
embC 4239992 p.Ala44Pro missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243841 p.Lys203Asn missense_variant 0.12
embA 4244009 c.777G>T synonymous_variant 0.29
embA 4245784 p.Thr851Met missense_variant 0.14
embB 4246544 p.Thr11Pro missense_variant 0.26
embB 4246548 p.Pro12Gln missense_variant 0.53
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246567 c.54G>T synonymous_variant 0.23
embB 4248745 c.2232C>T synonymous_variant 0.25
aftB 4268533 p.Thr102Ala missense_variant 0.17
whiB6 4338437 p.Val29Phe missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407766 p.Thr146Met missense_variant 0.14
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0