TB-Profiler result

Run: ERR1750924
Summary

Run ID: ERR1750924

Sample name:

Date: 31-03-2023 15:00:25

Number of reads: 8338416

Percentage reads mapped: 97.94

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 1472172 n.327T>C non_coding_transcript_exon_variant 0.4
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.38
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.3
rrs 1472256 n.411T>C non_coding_transcript_exon_variant 0.3
rrs 1472317 n.472G>T non_coding_transcript_exon_variant 0.2
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.19
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.12
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.15
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.18
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.18
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.24
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.24
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.35
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.25
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.29
rrs 1472993 n.1148G>T non_coding_transcript_exon_variant 0.24
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.25
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.25
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.25
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.23
rrs 1473069 n.1224T>A non_coding_transcript_exon_variant 0.17
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.14
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.21
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.17
rrs 1473147 n.1302G>A non_coding_transcript_exon_variant 0.16
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474466 n.809G>A non_coding_transcript_exon_variant 0.67
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.29
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.29
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.22
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.22
rrl 1474518 n.861C>T non_coding_transcript_exon_variant 0.18
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.21
rrl 1474992 n.1335C>T non_coding_transcript_exon_variant 0.22
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.14
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.24
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.17
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
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 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0