TB-Profiler result

Run: ERR4814475
Summary

Run ID: ERR4814475

Sample name:

Date: 01-04-2023 13:18:53

Number of reads: 353737

Percentage reads mapped: 99.46

Strain: lineage4.1.2

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
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 8316 p.Thr339Ala missense_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490639 c.-144C>T upstream_gene_variant 0.14
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.29
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777140 c.1341G>A synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.4
Rv1258c 1406481 c.859delC frameshift_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475764 n.2107A>G non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918170 c.231C>T synonymous_variant 0.33
ndh 2102538 p.Lys169Gln missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289896 c.-655C>A upstream_gene_variant 0.33
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
Rv2752c 3066115 c.76dupG frameshift_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4040071 c.631_633dupAAC conservative_inframe_insertion 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4267406 p.Lys477His missense_variant 0.11
aftB 4267411 p.Gly476Cys missense_variant 0.11
aftB 4267413 p.Gly475Ala missense_variant 0.12
ethR 4327813 p.Thr89Pro missense_variant 0.19
whiB6 4338595 c.-75delG upstream_gene_variant 1.0