TB-Profiler result

Run: SRR21277769
Summary

Run ID: SRR21277769

Sample name:

Date: 04-04-2023 01:40:44

Number of reads: 13107454

Percentage reads mapped: 97.94

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
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 491556 c.774G>A synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576451 c.1104G>A synonymous_variant 0.1
mshA 576589 c.1242A>T synonymous_variant 0.13
ccsA 619722 c.-169C>A upstream_gene_variant 0.11
ccsA 619733 c.-158G>A upstream_gene_variant 0.38
ccsA 619814 c.-77_-75delGGGinsTGT upstream_gene_variant 0.21
ccsA 619818 c.-73G>T upstream_gene_variant 0.12
ccsA 619993 p.Glu35Lys missense_variant 0.13
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763953 p.Arg195Leu missense_variant 0.11
rpoC 766983 p.Pro1205Leu missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777371 c.1110C>A synonymous_variant 0.17
mmpL5 779436 c.-956G>A upstream_gene_variant 0.99
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303120 p.Arg64Trp missense_variant 0.18
fbiC 1304242 p.Pro438Ser missense_variant 0.11
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406984 c.357A>T synonymous_variant 0.16
Rv1258c 1406988 p.Pro118Leu missense_variant 0.22
Rv1258c 1407534 c.-194C>T upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674210 c.9A>C synonymous_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.99
rpsA 1834865 p.Gly442Arg missense_variant 0.12
tlyA 1917967 p.Glu10Lys missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918059 c.120C>T synonymous_variant 0.15
tlyA 1918189 c.250C>A synonymous_variant 0.29
tlyA 1918572 c.633C>A synonymous_variant 0.14
tlyA 1918580 p.Arg214Leu missense_variant 0.15
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155757 p.Arg119Ser missense_variant 0.2
PPE35 2167869 p.Gly915Glu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170100 c.513G>A synonymous_variant 0.12
PPE35 2170402 p.Pro71Thr missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715043 p.Leu97Gln missense_variant 0.11
folC 2746631 p.Gly323Asp missense_variant 0.14
pepQ 2859605 p.Gly272Trp missense_variant 0.12
pepQ 2859924 c.495G>T synonymous_variant 0.2
pepQ 2859942 c.477C>A synonymous_variant 0.23
pepQ 2859954 c.465C>A synonymous_variant 0.13
pepQ 2860149 c.270C>T synonymous_variant 0.11
pepQ 2860221 c.198G>A synonymous_variant 0.11
Rv2752c 3065453 p.Gln247* stop_gained 1.0
thyX 3067225 p.Val241Leu missense_variant 0.12
thyX 3067233 p.Gly238Asp missense_variant 0.17
thyX 3067237 p.Asp237Tyr missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087301 p.Gly161Asp missense_variant 0.2
fbiD 3339307 p.Pro64Thr missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Leu missense_variant 1.0
fprA 3474927 c.921C>A synonymous_variant 0.11
fprA 3474981 c.975C>T synonymous_variant 0.12
fprA 3475303 p.Ala433Thr missense_variant 0.12
fprA 3475328 p.Arg441Leu missense_variant 0.11
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
fbiB 3641930 c.396G>A synonymous_variant 0.17
fbiB 3642375 p.Ala281Thr missense_variant 0.11
alr 3841188 p.Ala78Asp missense_variant 0.1
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242712 p.Gln950His missense_variant 0.11
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243567 p.Asp112Gly missense_variant 0.11
embA 4243586 p.Phe118Leu missense_variant 0.12
embA 4243909 p.Arg226Gln missense_variant 0.13
embA 4243948 p.Arg239Leu missense_variant 0.13
embA 4244220 p.Leu330Met missense_variant 0.11
embA 4244306 c.1074G>T synonymous_variant 0.1
embA 4244487 p.Ala419Thr missense_variant 0.11
embA 4244580 p.Asp450Tyr missense_variant 0.25
embB 4247103 p.Pro197Leu missense_variant 0.18
embB 4247872 c.1359C>A synonymous_variant 0.11
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethA 4328471 c.-998A>T upstream_gene_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0