TB-Profiler result

Run: SRR18213740
Summary

Run ID: SRR18213740

Sample name:

Date: 03-04-2023 19:27:18

Number of reads: 363173

Percentage reads mapped: 84.67

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 6922 c.-380G>T upstream_gene_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9381 p.Gly694Arg missense_variant 1.0
fgd1 491501 p.Glu240Gly missense_variant 0.17
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576253 c.906G>A synonymous_variant 0.25
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761719 p.Ala638Gly missense_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 762521 c.-849C>G upstream_gene_variant 0.13
rpoC 762533 c.-837T>C upstream_gene_variant 0.12
rpoC 762536 c.-834T>C upstream_gene_variant 0.12
rpoC 762537 c.-833T>C upstream_gene_variant 0.12
rpoC 762551 c.-819C>T upstream_gene_variant 0.15
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407084 p.Val86Gly missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834634 p.Ala365Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154519 c.1593G>A synonymous_variant 0.17
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167965 p.Ala883Gly missense_variant 0.18
PPE35 2167967 c.2646A>C synonymous_variant 0.17
Rv1979c 2222359 c.805delC frameshift_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2714628 c.705A>G synonymous_variant 0.14
eis 2714647 c.685delG frameshift_variant 0.17
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087808 p.Arg330Gln missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612835 c.282T>G synonymous_variant 0.4
rpoA 3877510 p.Glu333Ala missense_variant 1.0
rpoA 3878648 c.-141C>T upstream_gene_variant 1.0
panD 4044028 c.253delG frameshift_variant 0.18
embC 4241666 p.Ala602Thr missense_variant 0.2
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245111 p.Val627Ile missense_variant 0.2
embB 4246166 c.-348G>A upstream_gene_variant 1.0
embB 4248246 p.Ile578Asn missense_variant 0.15
ethA 4326905 p.Leu190Pro missense_variant 0.38
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0