TB-Profiler result

Run: SRR6982542
Summary

Run ID: SRR6982542

Sample name:

Date: 04-04-2023 18:40:39

Number of reads: 396995

Percentage reads mapped: 99.75

Strain: lineage2.2.1

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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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 6376 p.Glu379Asp missense_variant 0.33
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
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763486 c.117T>A synonymous_variant 0.17
rpoC 764371 c.1002G>T synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800848 p.Thr14Ser missense_variant 0.12
rplC 801136 p.Ser110Gly missense_variant 0.12
fbiC 1302931 p.Val1Met missense_variant 0.15
fbiC 1304826 c.1900dupT frameshift_variant 0.13
fbiC 1304837 p.Met636Thr missense_variant 0.12
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674208 p.Gly3* stop_gained 0.11
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917889 c.-51A>G upstream_gene_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.33
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155995 p.Trp39Cys missense_variant 0.14
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167977 p.Phe879Ser missense_variant 0.11
PPE35 2168271 p.Leu781Pro missense_variant 0.2
PPE35 2168934 p.Ile560Asn missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290110 c.-869C>T upstream_gene_variant 1.0
kasA 2517952 c.-163A>G upstream_gene_variant 0.12
ribD 2986989 p.Gly51Arg missense_variant 0.11
thyA 3074020 p.Gln151Arg missense_variant 0.17
thyA 3074324 p.Val50Leu missense_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448815 c.312C>A synonymous_variant 0.18
Rv3083 3449559 p.Met352Ile missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612158 p.Arg320Leu missense_variant 0.2
Rv3236c 3612168 p.Gly317* stop_gained 0.17
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
rpoA 3877655 p.Asp285Asn missense_variant 0.15
clpC1 4039006 p.Ala567Thr missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246567 c.54G>T synonymous_variant 1.0
embB 4246659 p.Val49Asp missense_variant 0.15
embB 4247046 p.Asp178Gly missense_variant 0.13
aftB 4267072 p.Ser589Pro missense_variant 0.17
aftB 4267249 p.Lys530Glu missense_variant 0.15
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268837 c.-1C>T upstream_gene_variant 0.12
ethA 4328337 c.-864C>G upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338701 c.-180T>C upstream_gene_variant 0.13
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0