TB-Profiler result

Run: ERR1949985
Summary

Run ID: ERR1949985

Sample name:

Date: 31-03-2023 15:36:38

Number of reads: 830894

Percentage reads mapped: 99.65

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
rpoB 759624 c.-183G>C upstream_gene_variant 0.14
rpoB 759783 c.-24C>A upstream_gene_variant 0.1
rpoB 761219 c.1413G>A synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775659 c.2821delC frameshift_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1304297 p.Gln456Leu missense_variant 0.11
Rv1258c 1407372 c.-32C>T upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rpsA 1834690 c.1149T>C synonymous_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167894 p.Ser907Pro missense_variant 0.1
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2170473 p.Ser47* stop_gained 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746660 c.938delT frameshift_variant 0.15
folC 2747036 p.Asn188Ser missense_variant 0.29
fbiD 3339199 p.Pro28Ala missense_variant 0.15
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fprA 3474956 c.952delG frameshift_variant 0.12
embC 4241430 p.Phe523Ser missense_variant 0.1
embC 4241994 p.Ala711Asp missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243784 c.552G>C synonymous_variant 0.11
embB 4249734 p.Pro1074Leu missense_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