TB-Profiler result

Run: ERR4816138

Summary

Run ID: ERR4816138

Sample name:

Date: 01-04-2023 14:15:29

Number of reads: 419828

Percentage reads mapped: 99.42

Strain: lineage1.2.2.2

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
lineage1 Indo-Oceanic EAI RD239 0.99
lineage1.2.2 Indo-Oceanic EAI1 RD239 1.0
lineage1.2.2.2 Indo-Oceanic NA RD239 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 5075 c.-165C>T upstream_gene_variant 1.0
gyrB 5087 c.-153C>T upstream_gene_variant 0.18
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7268 c.-34C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491237 p.Gly152Ala missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576128 p.Leu261Ile missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775733 c.2747delT frameshift_variant 0.29
mmpL5 776073 p.Val803Asp missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777818 c.663G>T synonymous_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673781 c.345_346delGG frameshift_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101654 p.Ser463Arg missense_variant 0.2
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156408 c.-297C>A upstream_gene_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168742 p.Gly624Asp missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289158 c.84C>A synonymous_variant 0.2
kasA 2518132 c.18C>T synonymous_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ribD 2987266 c.430_431delAC frameshift_variant 0.14
thyA 3073912 p.Met187Lys missense_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087189 p.Asp124Asn missense_variant 0.17
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473988 c.-19A>T upstream_gene_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fbiB 3641905 c.372delT frameshift_variant 0.12
fbiB 3642045 p.Ala171Thr missense_variant 1.0
ddn 3987271 p.Thr143Met missense_variant 0.18
clpC1 4038758 p.Asp649Glu missense_variant 0.5
clpC1 4040517 p.Val63Ala missense_variant 1.0
panD 4044045 c.237G>T synonymous_variant 0.18
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4246941 p.Pro143Arg missense_variant 0.18
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4268343 c.493delC frameshift_variant 0.29
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
aftB 4269678 c.-842C>G upstream_gene_variant 0.17
ethA 4326148 c.1326G>T synonymous_variant 1.0
ethA 4326439 p.Asn345Lys missense_variant 1.0
ethA 4327170 p.His102Tyr missense_variant 0.17
whiB6 4338203 p.Arg107Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0
gid 4408197 c.6T>A synonymous_variant 1.0