TB-Profiler result

Run: SRR10380172
Summary

Run ID: SRR10380172

Sample name:

Date: 02-04-2023 17:29:21

Number of reads: 2479180

Percentage reads mapped: 99.69

Strain: lineage4.8;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 0.14
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.86
lineage4.1.2 Euro-American T;H None 0.16
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.15
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 0.17
gyrA 9304 p.Gly668Asp missense_variant 0.26
fgd1 491591 p.Lys270Met missense_variant 0.12
mshA 575679 p.Asn111Ser missense_variant 0.2
mshA 576108 p.Ala254Gly missense_variant 0.21
rpoC 765150 p.Gly594Glu missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.8
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 0.9
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 0.13
Rv3083 3448497 c.-7T>A upstream_gene_variant 0.21
Rv3083 3448500 c.-4A>G upstream_gene_variant 0.12
Rv3083 3448501 c.-3G>T upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.14
clpC1 4039606 p.Glu367Gln missense_variant 0.16
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.18
embA 4243813 p.Arg194Gln missense_variant 0.18
embB 4246584 p.Arg24Pro missense_variant 0.16
embB 4247395 c.882C>T synonymous_variant 0.86
whiB6 4338473 c.49A>C synonymous_variant 0.89
whiB6 4338595 c.-75delG upstream_gene_variant 1.0