TB-Profiler result

Run: ERR1750923
Summary

Run ID: ERR1750923

Sample name:

Date: 31-03-2023 15:00:22

Number of reads: 8214221

Percentage reads mapped: 98.12

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 9817 c.2516A>T stop_lost&splice_region_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472100 n.255T>C non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.16
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.31
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.19
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.11
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.1
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.18
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.18
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.18
rrs 1472993 n.1148G>T non_coding_transcript_exon_variant 0.18
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.12
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.15
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.19
rrs 1473200 n.1355A>G non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.17
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.17
rrl 1474202 n.545T>A non_coding_transcript_exon_variant 0.17
rrl 1474770 n.1113G>A non_coding_transcript_exon_variant 0.13
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.17
rrl 1475009 n.1352G>A non_coding_transcript_exon_variant 0.2
rrl 1475692 n.2035G>C non_coding_transcript_exon_variant 0.25
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.23
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.13
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.11
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.11
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.11
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.2
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.2
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.22
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.22
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.22
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.22
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.22
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.22
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.2
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.15
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.2
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.15
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.25
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.18
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.19
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.15
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.14
rrl 1476566 n.2909A>T non_coding_transcript_exon_variant 0.18
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.18
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 0.99
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223301 c.-137C>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269864 c.-31C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407865 p.Glu113Ala missense_variant 0.99
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0