TB-Profiler result

Run: SRR21277752
Summary

Run ID: SRR21277752

Sample name:

Date: 04-04-2023 01:39:26

Number of reads: 10854052

Percentage reads mapped: 99.02

Strain: lineage2.2.1.1

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
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
lineage2.2.1.1 East-Asian (Beijing) Beijing-RD150 RD105;RD207;RD181;RD150 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 491742 c.960T>C synonymous_variant 1.0
mshA 575394 p.Arg16His missense_variant 0.1
mshA 575404 c.57C>A synonymous_variant 0.15
mshA 575405 p.Arg20Ser missense_variant 0.38
mshA 575485 c.138G>T synonymous_variant 0.12
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576223 c.876G>T synonymous_variant 0.11
mshA 576459 p.Ala371Asp missense_variant 0.25
mshA 576620 p.Ala425Ser missense_variant 0.16
ccsA 619816 c.-75G>T upstream_gene_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 762724 p.Gly973Asp missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763953 p.Arg195Leu missense_variant 0.11
rpoC 766969 c.3600C>A synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 0.99
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 777372 p.Pro370His missense_variant 0.1
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801246 c.438C>T synonymous_variant 0.11
fbiC 1303108 p.Ala60Thr missense_variant 0.22
fbiC 1303121 p.Arg64Leu missense_variant 0.5
fbiC 1304267 p.Arg446Leu missense_variant 0.12
fbiC 1304441 p.Arg504His missense_variant 0.21
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1407519 c.-179C>T upstream_gene_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1917977 p.Arg13Gln missense_variant 0.25
tlyA 1918580 p.Arg214Leu missense_variant 0.25
tlyA 1918591 c.652C>T synonymous_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155744 p.Gly123Val missense_variant 0.27
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170041 p.Thr191Met missense_variant 0.11
PPE35 2170104 p.Leu170His missense_variant 0.15
PPE35 2170348 p.Gln89* stop_gained 0.1
PPE35 2170349 c.264C>T synonymous_variant 0.19
PPE35 2170356 p.Ala86Val missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518871 p.His253Tyr missense_variant 1.0
kasA 2519033 p.His307Asn missense_variant 0.12
kasA 2519161 c.1047G>T synonymous_variant 0.12
eis 2714846 p.Val163Ile missense_variant 1.0
eis 2715050 p.Gly95Cys missense_variant 0.11
eis 2715575 c.-243G>T upstream_gene_variant 0.11
folC 2746312 p.Arg429Cys missense_variant 0.12
folC 2746626 p.Ala325Thr missense_variant 0.33
folC 2746636 c.963C>A synonymous_variant 0.24
pepQ 2859605 p.Gly272Trp missense_variant 0.33
pepQ 2859606 c.813G>A synonymous_variant 0.11
pepQ 2859925 p.Pro165Leu missense_variant 0.16
pepQ 2859930 c.489G>T synonymous_variant 0.2
pepQ 2859941 p.Arg160Ser missense_variant 0.2
pepQ 2859942 c.477C>A synonymous_variant 0.13
pepQ 2860143 c.276G>T synonymous_variant 0.12
pepQ 2860147 p.Gly91Val missense_variant 0.11
pepQ 2860580 c.-162G>T upstream_gene_variant 0.17
pepQ 2860589 c.-171G>T upstream_gene_variant 0.67
ribD 2987353 p.Thr172Met missense_variant 0.1
thyX 3067428 p.Ala173Val missense_variant 0.17
thyX 3067543 p.Ala135Thr missense_variant 0.11
thyX 3067903 p.Thr15Pro missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087299 p.Met160Ile missense_variant 0.22
fbiD 3339746 p.Ala210Val missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474928 p.Gly308Ser missense_variant 0.18
fprA 3474981 c.975C>T synonymous_variant 0.17
whiB7 3568800 c.-121C>T upstream_gene_variant 1.0
Rv3236c 3612177 c.940C>A synonymous_variant 0.11
Rv3236c 3612813 p.Thr102Ala missense_variant 0.99
fbiB 3641907 p.Pro125Thr missense_variant 0.11
fbiB 3642182 c.648G>A synonymous_variant 0.22
fbiB 3642242 c.708C>T synonymous_variant 0.14
alr 3841028 c.393G>T synonymous_variant 0.1
alr 3841034 p.Gln129His missense_variant 0.17
clpC1 4038193 p.His838Asn missense_variant 0.11
embC 4240637 p.His259Tyr missense_variant 0.12
embC 4241689 c.1827G>A synonymous_variant 0.11
embC 4242369 p.Arg836His missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242688 p.Gln942His missense_variant 0.13
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4243502 c.270G>A synonymous_variant 0.11
embA 4243892 c.660G>A synonymous_variant 0.11
embA 4244277 p.Pro349Ser missense_variant 0.22
embA 4244287 p.Gly352Val missense_variant 0.15
embA 4244289 p.Gly353Trp missense_variant 0.11
embA 4244453 c.1221G>A synonymous_variant 0.24
embB 4246793 p.Ala94Ser missense_variant 0.2
embB 4247641 c.1128G>T synonymous_variant 0.11
embB 4247864 p.Ala451Thr missense_variant 0.27
embB 4247904 p.Arg464Leu missense_variant 0.13
embB 4248115 c.1602C>T synonymous_variant 1.0
embB 4248594 p.Gly694Asp missense_variant 0.12
embB 4248603 p.Arg697Leu missense_variant 0.17
embB 4248612 p.Arg700Leu missense_variant 0.1
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267911 p.Pro309Leu missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.99
gid 4407927 p.Glu92Asp missense_variant 1.0