TB-Profiler result

Run: ERR4821465

Summary

Run ID: ERR4821465

Sample name:

Date: 01-04-2023 17:16:08

Number of reads: 262819

Percentage reads mapped: 99.33

Strain: lineage3

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
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
gid 4407851 c.351delG frameshift_variant 1.0 streptomycin
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 6134 p.Glu299Gln missense_variant 0.25
gyrB 6240 p.Asp334Gly missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8461 p.Arg387Leu missense_variant 0.17
gyrA 9003 p.Leu568Met missense_variant 0.29
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490786 p.Ala2Ser missense_variant 0.14
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 760588 p.Thr261Ile missense_variant 0.5
rpoB 760783 p.Thr326Lys missense_variant 0.29
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
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 776842 p.Ala547Thr missense_variant 0.15
mmpL5 777608 c.873C>T synonymous_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417182 p.Ile56Val missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
ndh 2102192 p.Arg284Leu missense_variant 0.29
ndh 2102770 p.His91Gln missense_variant 0.25
ndh 2103187 c.-145G>T upstream_gene_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168107 p.Leu836Ile missense_variant 0.22
PPE35 2168863 c.1750C>T synonymous_variant 1.0
Rv1979c 2223184 c.-20T>C upstream_gene_variant 0.22
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
pncA 2289686 c.-445G>T upstream_gene_variant 0.33
pncA 2289693 c.-452G>T upstream_gene_variant 0.29
eis 2715259 p.Thr25Asn missense_variant 0.15
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746461 p.Ser380Gly missense_variant 0.67
pepQ 2860154 p.Glu89Gln missense_variant 0.4
Rv2752c 3065163 c.1029C>G synonymous_variant 1.0
thyA 3074185 p.Val96Ala missense_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087143 c.324G>A synonymous_variant 0.67
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568573 p.Leu36Pro missense_variant 0.33
fbiA 3640843 p.Trp101Arg missense_variant 0.33
rpoA 3878559 c.-53delC upstream_gene_variant 0.4
clpC1 4038373 p.Gln778Lys missense_variant 0.22
clpC1 4040772 c.-68T>C upstream_gene_variant 0.25
panD 4044053 p.His77Tyr missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246807 c.294G>T synonymous_variant 0.67
aftB 4268170 p.Ala223Ser missense_variant 0.5
ethA 4326144 p.Asp444Tyr missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0