TB-Profiler result

Run: ERR1949991
Summary

Run ID: ERR1949991

Sample name:

Date: 31-03-2023 15:36:48

Number of reads: 747834

Percentage reads mapped: 99.69

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
mshA 576675 p.Arg443His missense_variant 0.11
rpoB 761710 p.Val635Asp missense_variant 0.14
rpoC 764001 p.Arg211His missense_variant 0.12
rpoC 764465 p.Ile366Val missense_variant 0.1
rpoC 766220 p.Ala951Ser missense_variant 0.13
rpoC 767236 c.3867G>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776664 p.Thr606Asn missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303119 c.189G>A synonymous_variant 0.11
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406380 p.Val321Phe missense_variant 0.12
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 2101656 p.Ser463Gly missense_variant 0.17
ndh 2102173 c.870C>T synonymous_variant 0.12
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2168831 c.1782C>A synonymous_variant 0.17
PPE35 2169017 p.Leu532Phe missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714679 c.654G>T synonymous_variant 0.12
eis 2715057 c.276C>T synonymous_variant 0.18
eis 2715060 p.His91Met missense_variant 0.18
eis 2715065 p.Thr90Ala missense_variant 0.17
eis 2715081 p.Phe84Leu missense_variant 0.11
folC 2746916 p.Pro228Leu missense_variant 0.17
folC 2747554 c.45C>T synonymous_variant 0.13
pepQ 2860597 c.-179A>G upstream_gene_variant 0.18
thyX 3067945 p.Val1Leu missense_variant 0.14
Rv3236c 3612073 c.1044C>A synonymous_variant 0.12
clpC1 4040232 p.Arg158Leu missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243040 c.-193T>C upstream_gene_variant 0.1
embB 4245809 c.-705A>G upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0