TB-Profiler result

Run: ERR2229110
Summary

Run ID: ERR2229110

Sample name:

Date: 31-03-2023 16:41:15

Number of reads: 988583

Percentage reads mapped: 99.04

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 6148 c.911delT frameshift_variant 0.15
gyrB 6756 p.Ile506Thr missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
rpoB 760800 p.Val332Ile missense_variant 0.14
rpoB 761736 p.Ile644Val missense_variant 0.1
rpoB 763140 p.Pro1112Thr missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775747 p.Met912Leu missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304676 c.1746A>C synonymous_variant 0.18
fbiC 1304679 p.Glu583Asp missense_variant 0.18
fbiC 1304680 p.Val584Leu missense_variant 0.18
fbiC 1304683 p.Ala585Ser missense_variant 0.18
Rv1258c 1406497 p.Ala282Ser missense_variant 0.12
Rv1258c 1407235 c.104_105delTG frameshift_variant 0.2
Rv1258c 1407243 p.Leu33Gln missense_variant 0.2
embR 1417418 c.-71A>G upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473199 n.1354C>A non_coding_transcript_exon_variant 0.22
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475015 n.1358C>T non_coding_transcript_exon_variant 0.33
rrl 1475724 n.2067C>T non_coding_transcript_exon_variant 0.2
rrl 1476013 n.2356A>C non_coding_transcript_exon_variant 0.5
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
fabG1 1673346 c.-94C>G upstream_gene_variant 0.15
fabG1 1673349 c.-91G>C upstream_gene_variant 0.15
fabG1 1673359 c.-81T>C upstream_gene_variant 0.1
fabG1 1673361 c.-79C>G upstream_gene_variant 0.1
fabG1 1673380 c.-60C>G upstream_gene_variant 0.44
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918595 p.Gly219Asp missense_variant 0.11
PPE35 2167865 c.2748G>C synonymous_variant 0.24
PPE35 2167868 c.2745A>C synonymous_variant 0.22
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.11
PPE35 2169281 c.1332T>G synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.73
PPE35 2170053 p.Thr187Ser missense_variant 0.69
PPE35 2170147 p.Ser156Ala missense_variant 0.13
PPE35 2170159 p.Ala152Ser missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518864 c.750G>C synonymous_variant 0.12
eis 2714318 c.1015C>A synonymous_variant 0.11
ahpC 2726601 p.Ile137Val missense_variant 0.1
Rv2752c 3066321 c.-131delG upstream_gene_variant 0.11
thyX 3067340 c.606G>A synonymous_variant 0.13
Rv3083 3448370 c.-134C>A upstream_gene_variant 0.17
whiB7 3568463 p.Gln73Lys missense_variant 0.12
fbiB 3642772 p.Asp413Val missense_variant 0.14
rpoA 3877781 p.His243Asn missense_variant 0.12
clpC1 4039022 c.1683A>G synonymous_variant 0.11
clpC1 4039031 c.1674T>C synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.44
embB 4246548 p.Pro12Gln missense_variant 0.44
embB 4246555 c.42G>C synonymous_variant 0.8
embB 4246556 p.Ala15Pro missense_variant 0.8
embB 4246563 p.Leu17Trp missense_variant 0.67
embB 4246567 c.54G>T synonymous_variant 0.67
aftB 4267763 c.1074C>T synonymous_variant 0.14
aftB 4268550 p.Val96Ala missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0