TB-Profiler result

Run: ERR2229798
Summary

Run ID: ERR2229798

Sample name:

Date: 31-03-2023 17:35:55

Number of reads: 455924

Percentage reads mapped: 99.64

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
rpoC 763619 p.Arg84Cys missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775741 c.2740C>T synonymous_variant 0.17
mmpL5 775747 p.Met912Leu missense_variant 0.18
mmpL5 775748 c.2733T>C synonymous_variant 0.18
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
rrl 1475200 n.1543T>A non_coding_transcript_exon_variant 0.67
rpsA 1833881 p.Gly114Ser missense_variant 0.29
rpsA 1833887 p.Ile116Val missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918670 p.Arg244His missense_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169192 p.Ala474Glu missense_variant 0.12
PPE35 2169488 c.1125G>C synonymous_variant 0.17
PPE35 2169491 c.1122T>C synonymous_variant 0.17
PPE35 2169518 c.1094delG frameshift_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289525 c.-284G>C upstream_gene_variant 0.17
thyA 3074232 p.Trp80Cys missense_variant 0.29
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
clpC1 4038637 p.Tyr690His missense_variant 0.13
clpC1 4040410 p.Gly99Cys missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.25
embB 4246555 c.42G>C synonymous_variant 0.25
embB 4246556 p.Ala15Pro missense_variant 0.25
embB 4247470 c.957T>C synonymous_variant 0.13
embB 4247472 p.Phe320Tyr missense_variant 0.13
embB 4247691 p.Thr393Asn missense_variant 0.11
aftB 4267473 p.Gly455Asp missense_variant 0.2
ubiA 4269742 p.Leu31Gln missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448508 c.6_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0