TB-Profiler result

Run: ERR4819871
Summary

Run ID: ERR4819871

Sample name:

Date: 01-04-2023 16:21:08

Number of reads: 1043883

Percentage reads mapped: 99.4

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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779610 c.-705T>C upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416232 p.Cys372Gly missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472301 n.456C>G non_coding_transcript_exon_variant 0.13
rrs 1472719 n.874G>A non_coding_transcript_exon_variant 0.18
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474089 n.432C>T non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.12
PPE35 2167760 c.2853G>A synonymous_variant 0.14
PPE35 2167865 c.2748G>C synonymous_variant 0.16
PPE35 2167868 c.2745A>C synonymous_variant 0.16
PPE35 2167965 p.Ala883Gly missense_variant 0.11
PPE35 2167967 c.2646A>C synonymous_variant 0.12
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169581 c.1032C>G synonymous_variant 0.12
PPE35 2169587 c.1026G>A synonymous_variant 0.17
PPE35 2170147 p.Ser156Ala missense_variant 0.17
PPE35 2170159 p.Ala152Ser missense_variant 0.19
PPE35 2170412 c.201G>T synonymous_variant 0.12
PPE35 2170415 c.198A>C synonymous_variant 0.12
PPE35 2170454 c.159C>G synonymous_variant 0.15
PPE35 2170457 c.156G>C synonymous_variant 0.15
PPE35 2170460 c.153G>A synonymous_variant 0.16
PPE35 2170465 p.Ala50Ser missense_variant 0.16
PPE35 2170472 c.141G>A synonymous_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519107 p.Cys331* stop_gained 0.14
thyX 3067451 p.Lys165Asn missense_variant 0.11
fbiD 3339196 c.83delC frameshift_variant 0.12
fprA 3474165 c.159C>G synonymous_variant 0.12
Rv3236c 3612574 c.543G>A synonymous_variant 1.0
clpC1 4039530 p.Asp392Ala missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246544 p.Thr11Pro missense_variant 0.1
embB 4247494 c.981G>A synonymous_variant 1.0
aftB 4267925 c.912G>C synonymous_variant 0.2
aftB 4268198 p.Ile213Met missense_variant 1.0
ubiA 4269864 c.-31C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0