TB-Profiler result

Run: SRR6981920
Summary

Run ID: SRR6981920

Sample name:

Date: 04-04-2023 18:21:55

Number of reads: 656586

Percentage reads mapped: 99.77

Strain: lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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
gyrB 6140 p.Val301Leu missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8795 c.1494C>T synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491714 p.His311Arg missense_variant 0.12
mshA 576751 p.Lys468Asn missense_variant 0.22
ccsA 620148 c.258G>T synonymous_variant 0.14
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 779609 c.-704C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461191 c.147G>C synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474072 n.415A>C non_coding_transcript_exon_variant 0.12
fabG1 1673333 c.-107C>A upstream_gene_variant 0.2
fabG1 1673527 p.Ala30Thr missense_variant 0.12
fabG1 1673688 p.Glu83Asp missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.2
ndh 2103225 c.-183A>C upstream_gene_variant 0.17
PPE35 2167674 p.Leu980Gln missense_variant 0.29
PPE35 2167746 p.Thr956Asn missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289426 c.-185G>T upstream_gene_variant 0.11
pncA 2289909 c.-668G>A upstream_gene_variant 1.0
kasA 2519343 p.Ala410Glu missense_variant 0.11
folC 2746959 p.Gly214Trp missense_variant 0.12
thyX 3068074 c.-129C>A upstream_gene_variant 0.14
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339286 p.Arg57Cys missense_variant 0.17
fbiD 3339404 c.288delC frameshift_variant 0.12
fbiD 3339691 p.Pro192Thr missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474111 c.105C>A synonymous_variant 0.11
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039484 c.1221T>G synonymous_variant 0.19
embC 4241819 p.Ser653Pro missense_variant 0.14
embC 4242057 p.Pro732Gln missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267761 p.Asp359Gly missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0