TB-Profiler result

Run: ERR11050529
Summary

Run ID: ERR11050529

Sample name:

Date: 03-04-2023 09:04:49

Number of reads: 5198626

Percentage reads mapped: 99.33

Strain: lineage1.2.2.1

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 0.98
lineage1.2.2 Indo-Oceanic EAI1 RD239 0.98
lineage1.2.2.1 Indo-Oceanic NA RD239 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
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 0.95
gyrB 6112 p.Met291Ile missense_variant 0.97
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.99
gyrA 8452 p.Ala384Val missense_variant 0.98
gyrA 9143 c.1842T>C synonymous_variant 0.98
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9647 c.2346C>G synonymous_variant 0.2
fgd1 491742 c.960T>C synonymous_variant 0.97
mshA 576456 p.Val370Gly missense_variant 0.31
mshA 576616 c.1269G>C synonymous_variant 0.17
rpoC 763031 c.-339T>C upstream_gene_variant 0.98
rpoC 763884 p.Ala172Val missense_variant 0.97
rpoC 763886 c.517C>A synonymous_variant 0.97
rpoC 764367 p.Gly333Ala missense_variant 0.24
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.97
mmpL5 777883 p.Gly200Arg missense_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416450 p.Gly300Cys missense_variant 0.99
embR 1416937 p.His137Gln missense_variant 0.97
embR 1417019 p.Cys110Tyr missense_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.24
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.99
PPE35 2167926 p.Leu896Ser missense_variant 0.99
PPE35 2168205 p.Pro803Gln missense_variant 0.97
PPE35 2170065 p.Ala183Gly missense_variant 0.29
Rv1979c 2222308 p.Asp286Gly missense_variant 0.97
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.98
kasA 2519071 p.Asp319Glu missense_variant 0.19
ahpC 2726051 c.-142G>A upstream_gene_variant 0.93
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.67
fbiD 3339746 p.Ala210Gly missense_variant 0.71
fbiD 3339751 p.Ala212Pro missense_variant 0.17
Rv3083 3448714 p.Asp71His missense_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.99
fprA 3474597 c.591C>A synonymous_variant 0.98
fprA 3475159 p.Asn385Asp missense_variant 0.97
Rv3236c 3612804 p.Ala105Thr missense_variant 0.99
rpoA 3878580 c.-73A>C upstream_gene_variant 0.24
rpoA 3878641 c.-134C>G upstream_gene_variant 0.65
clpC1 4040517 p.Val63Ala missense_variant 1.0
panD 4044307 c.-26A>G upstream_gene_variant 0.96
embC 4240409 p.Pro183Ala missense_variant 0.34
embC 4240671 p.Thr270Ile missense_variant 0.99
embC 4240750 c.888C>T synonymous_variant 0.99
embC 4241042 p.Asn394Asp missense_variant 0.98
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243532 c.300C>A synonymous_variant 0.96
embA 4245969 p.Pro913Ser missense_variant 0.99
embA 4246275 p.Ala1015Thr missense_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.35
embB 4246529 p.Ser6Arg missense_variant 0.22
embB 4246584 p.Arg24Pro missense_variant 0.15
embB 4247016 p.Ser168Trp missense_variant 0.18
embB 4247646 p.Glu378Ala missense_variant 0.99
embB 4248328 c.1815G>C synonymous_variant 0.21
ubiA 4269387 p.Glu149Asp missense_variant 0.97
ubiA 4269469 p.Pro122Gln missense_variant 0.98
aftB 4269606 c.-770T>C upstream_gene_variant 0.98
ethA 4326439 p.Asn345Lys missense_variant 0.96
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 0.98
gid 4407588 c.615A>G synonymous_variant 0.98
gid 4407873 c.330G>T synonymous_variant 0.98
gid 4408124 p.Ala27Pro missense_variant 1.0