TB-Profiler result

Run: ERR2229109
Summary

Run ID: ERR2229109

Sample name:

Date: 31-03-2023 16:40:15

Number of reads: 1027874

Percentage reads mapped: 99.18

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9352 p.Ser684* stop_gained 0.14
fgd1 491687 p.Thr302Lys missense_variant 0.15
rpoB 761096 c.1290G>T synonymous_variant 0.15
rpoC 766489 c.3120G>T synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776080 p.Ala801Ser missense_variant 0.14
mmpL5 776081 c.2400G>A synonymous_variant 0.14
mmpL5 777128 c.1353A>G synonymous_variant 0.21
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406382 p.Val320Ala missense_variant 0.12
Rv1258c 1406389 p.Cys318Arg missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.17
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474546 n.889G>T non_coding_transcript_exon_variant 0.18
fabG1 1673380 c.-60C>G upstream_gene_variant 0.28
rpsA 1834191 p.Ser217Tyr missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102533 c.510A>G synonymous_variant 0.14
ndh 2102553 p.Pro164Thr missense_variant 0.13
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.21
PPE35 2169281 c.1332T>G synonymous_variant 0.2
PPE35 2169287 c.1326T>C synonymous_variant 0.21
PPE35 2169902 c.711G>C synonymous_variant 0.15
PPE35 2170048 p.Leu189Val missense_variant 0.26
PPE35 2170053 p.Thr187Ser missense_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.19
kasA 2519143 c.1029G>C synonymous_variant 0.17
kasA 2519171 p.Leu353Val missense_variant 0.16
ribD 2987369 c.531G>T synonymous_variant 0.22
thyA 3074440 p.Val11Glu missense_variant 0.14
fprA 3474868 p.Val288Leu missense_variant 0.14
whiB7 3568402 c.278A>G stop_lost&splice_region_variant 0.11
fbiB 3641893 p.Leu120Arg missense_variant 0.25
fbiB 3642314 c.780C>A synonymous_variant 0.13
fbiB 3642325 p.Arg264Leu missense_variant 0.12
alr 3840982 p.Arg147Gly missense_variant 0.15
alr 3841546 c.-126C>A upstream_gene_variant 0.17
clpC1 4039850 c.855T>C synonymous_variant 0.11
embC 4241622 p.Thr587Asn missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.33
embB 4246548 p.Pro12Gln missense_variant 0.36
embB 4246555 c.42G>C synonymous_variant 0.44
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246563 p.Leu17Trp missense_variant 0.33
embB 4246567 c.54G>T synonymous_variant 0.33
embB 4248619 c.2106G>T synonymous_variant 0.14
embB 4249730 c.3221delC frameshift_variant 0.18
aftB 4267897 p.Phe314Leu missense_variant 0.14
ethA 4328455 c.-982G>C upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0