TB-Profiler result

Run: ERR4821521
Summary

Run ID: ERR4821521

Sample name:

Date: 01-04-2023 17:18:06

Number of reads: 312320

Percentage reads mapped: 97.73

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
lineage4.1.2 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
gyrB 6008 c.769C>T synonymous_variant 0.17
gyrB 6048 c.810delG frameshift_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7849 p.Val183Ala missense_variant 0.25
gyrA 8557 p.Ala419Val missense_variant 0.25
gyrA 9192 p.Leu631Met missense_variant 0.5
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490584 c.-199C>T upstream_gene_variant 0.12
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575290 c.-58C>T upstream_gene_variant 0.33
mshA 575679 p.Asn111Ser missense_variant 1.0
ccsA 619954 p.Val22Met missense_variant 0.33
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760122 p.Phe106Leu missense_variant 0.2
rpoB 760797 p.Asp331His missense_variant 0.4
rpoB 760918 c.1114delC frameshift_variant 0.29
rpoB 761021 c.1215G>A synonymous_variant 0.33
rpoC 763821 p.Leu151Arg missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776027 c.2454G>A synonymous_variant 0.33
mmpL5 776378 p.Phe701Leu missense_variant 0.2
mmpL5 777905 c.576G>A synonymous_variant 0.22
mmpL5 778943 c.-464delC upstream_gene_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303619 p.His230Leu missense_variant 0.33
fbiC 1305435 c.2505G>A synonymous_variant 0.25
Rv1258c 1406212 p.His377Asn missense_variant 0.5
atpE 1461107 c.63C>T synonymous_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673794 p.Val119Leu missense_variant 0.17
fabG1 1673801 p.Gln121Arg missense_variant 0.17
fabG1 1674005 p.Asp189Gly missense_variant 0.33
inhA 1674840 c.639C>T synonymous_variant 0.33
rpsA 1833397 c.-145G>T upstream_gene_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101975 c.1067delC frameshift_variant 0.2
ndh 2102983 c.60C>T synonymous_variant 0.25
katG 2154357 c.1755C>T synonymous_variant 0.4
PPE35 2168638 p.Pro659Ala missense_variant 0.22
PPE35 2169634 p.Ala327Thr missense_variant 0.4
Rv1979c 2222813 c.352T>C synonymous_variant 0.4
Rv1979c 2223176 c.-12A>T upstream_gene_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289010 p.Gly78Arg missense_variant 0.17
pncA 2289442 c.-201G>T upstream_gene_variant 0.15
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2519280 p.Pro389Gln missense_variant 0.22
ahpC 2726051 c.-142G>T upstream_gene_variant 0.12
ahpC 2726070 c.-123G>T upstream_gene_variant 0.12
ahpC 2726192 c.-1C>T upstream_gene_variant 0.12
folC 2747434 p.Asp55Glu missense_variant 0.25
pepQ 2860336 p.Ile28Arg missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339502 p.Ile129Val missense_variant 0.4
Rv3083 3448550 p.Gly16Asp missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475368 c.1362G>T synonymous_variant 0.4
fbiB 3641958 p.Val142Ile missense_variant 0.25
fbiB 3642095 p.Leu187Phe missense_variant 0.5
ddn 3986907 p.Ser22Thr missense_variant 0.12
ddn 3987124 p.Ala94Val missense_variant 0.17
clpC1 4038655 p.Gly684Cys missense_variant 0.25
panD 4044095 p.Glu63Lys missense_variant 0.22
embC 4240308 p.Gly149Val missense_variant 0.5
embC 4240630 c.768C>A synonymous_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244126 c.894C>T synonymous_variant 0.4
embB 4247396 p.Ala295Ser missense_variant 0.29
embB 4249117 c.2604G>A synonymous_variant 0.22
embB 4249145 p.Thr878Pro missense_variant 0.2
aftB 4268113 p.Ala242Ser missense_variant 0.2
aftB 4268230 p.Ala203Thr missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407571 p.Ile211Thr missense_variant 0.29
gid 4408005 c.198G>T synonymous_variant 0.25
gid 4408258 c.-56C>T upstream_gene_variant 0.14