TB-Profiler result

Run: SRR4033468

Summary

Run ID: SRR4033468

Sample name:

Date: 04-04-2023 06:07:05

Number of reads: 763718

Percentage reads mapped: 99.51

Strain: lineage2.2.2

Drug-resistance: Other


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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
lineage2 East-Asian Beijing RD105 0.99
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.99
lineage2.2.2 East-Asian (Beijing) Beijing-RD105/RD207 RD105;RD207 0.98
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
ethA 4326333 p.Ala381Pro missense_variant 1.0 ethionamide
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 8802 p.Ala501Thr missense_variant 0.17
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 761533 p.Ser576Leu missense_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
mmpL5 776907 p.Gln525Pro missense_variant 0.13
mmpL5 777118 p.Asp455Asn missense_variant 0.25
mmpS5 779615 c.-710C>G upstream_gene_variant 0.91
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102676 p.Gln123* stop_gained 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154761 p.Gly451Ser missense_variant 0.13
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2221939 p.Arg409Gln missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067599 p.Val116Ala missense_variant 0.17
thyA 3074654 c.-183T>G upstream_gene_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474444 c.438G>T synonymous_variant 0.13
fprA 3474698 p.Asp231Gly missense_variant 0.15
fprA 3474842 p.Lys279Met missense_variant 0.11
whiB7 3568463 p.Gln73Glu missense_variant 0.12
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3640977 c.-558C>G upstream_gene_variant 0.11
clpC1 4040490 p.Gln72Arg missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4247605 c.1092G>A synonymous_variant 0.18
aftB 4267319 p.Asp506Glu missense_variant 0.15
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269278 p.Phe186Leu missense_variant 0.15
ethR 4326943 c.-606G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.92
gid 4407927 p.Glu92Asp missense_variant 1.0