TB-Profiler result

Run: ERR2512453
Summary

Run ID: ERR2512453

Sample name:

Date: 31-03-2023 19:02:28

Number of reads: 535685

Percentage reads mapped: 99.55

Strain: lineage3.1.1

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
lineage3 East-African-Indian CAS RD750 1.0
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.1 East-African-Indian CAS1-Kili 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 8414 c.1113C>T synonymous_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 760928 c.1122G>A synonymous_variant 0.2
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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303447 p.Tyr173His missense_variant 0.13
fbiC 1303587 c.657G>A synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833438 c.-104C>T upstream_gene_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102968 c.75C>T synonymous_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169788 c.824delT frameshift_variant 0.18
PPE35 2170461 p.Gly51Glu missense_variant 1.0
Rv1979c 2222483 p.Ala228Thr missense_variant 0.11
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 2519057 p.Thr315Ser missense_variant 0.17
kasA 2519062 c.948T>G synonymous_variant 0.17
kasA 2519065 c.951C>A synonymous_variant 0.17
kasA 2519070 p.Asp319Val missense_variant 0.22
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086846 c.27C>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474143 p.Trp46Tyr missense_variant 0.15
fprA 3474165 c.159C>G synonymous_variant 0.18
fbiA 3640886 p.Arg115His missense_variant 0.13
rpoA 3878161 p.Val116Gly missense_variant 0.11
rpoA 3878174 p.Pro112Thr missense_variant 0.11
rpoA 3878567 c.-60C>G upstream_gene_variant 1.0
panD 4043943 c.339A>G synonymous_variant 0.14
embC 4240172 p.Val104Met missense_variant 1.0
embC 4241562 p.Arg567His missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246635 p.Ser41Leu missense_variant 0.15
embB 4247783 c.1272delG frameshift_variant 0.14
embB 4249370 p.Leu953Met missense_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408345 c.-143C>T upstream_gene_variant 0.93