TB-Profiler result

Run: ERR4816420
Summary

Run ID: ERR4816420

Sample name:

Date: 01-04-2023 14:25:09

Number of reads: 790943

Percentage reads mapped: 98.81

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 0.9
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765529 c.2160C>A synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777748 p.Gly245Arg missense_variant 0.27
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302784 c.-147T>C upstream_gene_variant 0.12
fbiC 1304653 p.Asp575Asn missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473643 n.-14delG upstream_gene_variant 0.14
rrl 1475753 n.2096C>A non_coding_transcript_exon_variant 0.67
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170226 c.386delA frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3064598 p.Gly532Trp missense_variant 0.13
Rv2752c 3065678 p.Lys172Gln missense_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474861 c.855G>A synonymous_variant 0.13
fprA 3475317 c.1311C>T synonymous_variant 0.14
fbiB 3640665 c.-870G>T upstream_gene_variant 0.12
rpoA 3877506 c.1002C>T synonymous_variant 0.15
clpC1 4039140 p.Glu522Ala missense_variant 0.12
clpC1 4039750 p.Thr319Pro missense_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247796 p.Leu428Pro missense_variant 0.18
ethA 4328007 c.-534G>A upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0