TB-Profiler result

Run: SRR6896268
Summary

Run ID: SRR6896268

Sample name:

Date: 04-04-2023 18:00:37

Number of reads: 315223

Percentage reads mapped: 99.5

Strain: lineage4.1.1

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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491504 p.Leu241Pro missense_variant 0.17
ccsA 620525 c.637delG frameshift_variant 0.1
rpoB 762285 p.Arg827Ser missense_variant 0.11
rpoB 763081 p.Gly1092Asp missense_variant 0.18
rpoC 763787 c.419delA frameshift_variant 0.29
rpoC 763962 p.Arg198His missense_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303651 p.Arg241Trp missense_variant 0.11
embR 1416787 c.561C>T synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473224 n.1379G>A non_coding_transcript_exon_variant 1.0
rrl 1473529 n.-129T>C upstream_gene_variant 0.12
rrl 1475058 n.1401C>T non_coding_transcript_exon_variant 0.25
rrl 1476716 n.3059A>G non_coding_transcript_exon_variant 0.12
tlyA 1917806 c.-134T>G upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918364 p.Glu142Gly missense_variant 0.12
tlyA 1918462 p.Ala175Ser missense_variant 0.13
ndh 2103124 c.-82T>A upstream_gene_variant 0.25
katG 2155559 p.Phe185Leu missense_variant 0.14
PPE35 2168162 c.2451C>A synonymous_variant 0.2
Rv1979c 2221738 p.Asp476Gly missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519106 p.Cys331Phe missense_variant 0.13
folC 2747750 c.-152G>A upstream_gene_variant 0.25
ribD 2987024 p.Met62Ile missense_variant 0.11
Rv2752c 3065773 p.Glu140Gly missense_variant 0.12
Rv2752c 3065998 p.Arg65Pro missense_variant 0.12
thyX 3067543 p.Ala135Ser missense_variant 0.2
ald 3086643 c.-177T>C upstream_gene_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448589 p.Asp29Val missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640502 c.-41C>T upstream_gene_variant 0.29
alr 3840545 c.876C>T synonymous_variant 0.1
ddn 3986990 c.154_156dupACC conservative_inframe_insertion 0.17
clpC1 4040892 c.-188A>G upstream_gene_variant 0.13
panD 4044437 c.-156C>T upstream_gene_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249160 p.Ile883Val missense_variant 0.22
embB 4249408 c.2895G>A synonymous_variant 1.0
ubiA 4269773 p.Ile21Val missense_variant 0.14
ethA 4326524 p.Ile317Asn missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407625 p.Ala193Val missense_variant 0.14
gid 4408166 p.Gly13Arg missense_variant 0.11