TB-Profiler result

Run: ERR11044895
Summary

Run ID: ERR11044895

Sample name:

Date: 31-03-2023 12:02:21

Number of reads: 375680

Percentage reads mapped: 99.4

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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
gyrA 9777 p.Asn826Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575991 p.Val215Asp missense_variant 0.18
mshA 576100 p.Asp251Glu missense_variant 0.22
mshA 576113 p.Arg256Gly missense_variant 0.33
ccsA 620865 c.975A>T stop_lost&splice_region_variant 0.22
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 761401 p.Arg532Leu missense_variant 0.18
rpoB 761482 p.Ala559Gly missense_variant 0.25
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762636 p.Lys944Glu missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764181 p.Asp271Gly missense_variant 1.0
rpoC 764365 c.996C>G synonymous_variant 0.22
rpoC 764953 c.1584G>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpR5 778154 c.-836G>A upstream_gene_variant 0.18
mmpL5 778668 c.-188C>A upstream_gene_variant 0.29
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472194 n.349G>A non_coding_transcript_exon_variant 0.15
rrl 1474008 n.351G>T non_coding_transcript_exon_variant 0.11
rrl 1474978 n.1321A>T non_coding_transcript_exon_variant 0.11
rrl 1475367 n.1710C>T non_coding_transcript_exon_variant 0.14
rpsA 1834853 p.Ala438Thr missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918535 p.His199Leu missense_variant 0.22
ndh 2101759 c.1284G>A synonymous_variant 0.12
ndh 2101891 c.1152C>A synonymous_variant 0.25
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168085 p.Glu843Gly missense_variant 0.29
PPE35 2169216 p.Glu466Val missense_variant 0.13
PPE35 2170517 c.96C>T synonymous_variant 0.11
PPE35 2170769 c.-157C>T upstream_gene_variant 1.0
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
kasA 2519077 c.963G>C synonymous_variant 0.67
eis 2715427 c.-95T>G upstream_gene_variant 0.29
eis 2715432 c.-100C>T upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2859359 p.Thr354Ala missense_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.33
Rv2752c 3065499 c.693A>G synonymous_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474087 c.81C>T synonymous_variant 0.2
fprA 3474525 p.Leu173Phe missense_variant 0.2
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245825 p.Asp865Asn missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407560 p.Ser215Pro missense_variant 0.13
gid 4407588 c.615A>G synonymous_variant 1.0