TB-Profiler result

Run: ERR2229258

Summary

Run ID: ERR2229258

Sample name:

Date: 31-03-2023 16:54:13

Number of reads: 1795008

Percentage reads mapped: 99.16

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
mmpL5 775741 c.2740C>T synonymous_variant 0.17
mmpL5 775742 c.2739C>T synonymous_variant 0.17
mmpL5 775927 c.2554C>T synonymous_variant 0.3
mmpL5 775931 c.2550C>T synonymous_variant 0.27
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102192 p.Arg284Gln missense_variant 0.12
PPE35 2167965 p.Ala883Gly missense_variant 0.2
PPE35 2167967 c.2646A>C synonymous_variant 0.2
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.14
PPE35 2169281 c.1332T>G synonymous_variant 0.11
PPE35 2169287 c.1326T>C synonymous_variant 0.13
PPE35 2169293 c.1320T>C synonymous_variant 0.16
PPE35 2169902 c.711G>C synonymous_variant 0.13
PPE35 2170048 p.Leu189Val missense_variant 0.36
PPE35 2170053 p.Thr187Ser missense_variant 0.32
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519140 c.1026G>C synonymous_variant 0.14
kasA 2519143 c.1029G>C synonymous_variant 0.14
eis 2715515 c.-185_-184delAG upstream_gene_variant 0.11
folC 2746415 p.Glu395Gly missense_variant 0.15
pepQ 2859608 c.811C>A synonymous_variant 0.31
fbiD 3339584 p.Thr156Asn missense_variant 0.12
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 0.24
embC 4242158 c.2296C>T synonymous_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4243101 p.Val1080Ala missense_variant 0.12
embA 4245745 p.Pro838Arg missense_variant 0.13
embB 4247033 p.Ser174Arg missense_variant 0.25
aftB 4269471 c.-635C>G upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0