TB-Profiler result

Run: ERR4814345
Summary

Run ID: ERR4814345

Sample name:

Date: 01-04-2023 13:14:26

Number of reads: 867337

Percentage reads mapped: 99.5

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
gyrB 5847 p.Gly203Glu missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761152 p.Leu449Gln missense_variant 0.14
rpoB 761257 c.1455delG frameshift_variant 0.12
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 777149 p.Asn444Lys missense_variant 0.12
mmpL5 777157 c.1324C>A synonymous_variant 0.11
mmpL5 777164 c.1317C>T synonymous_variant 0.11
mmpL5 777173 c.1308C>T synonymous_variant 0.11
mmpL5 777176 p.Glu435Asp missense_variant 0.12
mmpL5 777191 c.1290C>A synonymous_variant 0.12
mmpR5 779171 p.Ala61Val missense_variant 0.14
mmpS5 779621 c.-716G>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155626 c.486G>A synonymous_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168222 c.2391G>A synonymous_variant 0.12
PPE35 2169902 p.Leu237Phe missense_variant 0.23
PPE35 2169910 p.Asn235Tyr missense_variant 0.21
PPE35 2170048 p.Leu189Val missense_variant 0.2
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 2289934 c.-693C>T upstream_gene_variant 0.22
kasA 2518147 c.33C>T synonymous_variant 0.2
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2859896 p.Glu175Lys missense_variant 0.13
thyA 3074039 p.Pro145Ala missense_variant 0.1
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339660 c.543C>A synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612287 p.Gly277Ala missense_variant 0.13
fbiB 3641250 c.-285A>G upstream_gene_variant 0.15
fbiA 3641338 p.Asp266His missense_variant 0.1
alr 3841473 c.-53G>A upstream_gene_variant 1.0
rpoA 3877975 c.532delG frameshift_variant 0.12
clpC1 4039730 c.975C>G synonymous_variant 0.12
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242412 c.-821G>A upstream_gene_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244221 c.991delG frameshift_variant 0.11
aftB 4268749 p.Asp30Asn missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0