TB-Profiler result

Run: SRR11972267
Summary

Run ID: SRR11972267

Sample name:

Date: 03-04-2023 05:34:06

Number of reads: 563946

Percentage reads mapped: 99.56

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 6385 c.-917G>T upstream_gene_variant 0.15
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
rpoC 762860 c.-510G>T upstream_gene_variant 0.13
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763067 c.-303C>A upstream_gene_variant 0.12
rpoB 763183 p.Cys1126Tyr missense_variant 0.18
rpoC 765254 p.Val629Leu missense_variant 0.11
rpoC 765694 c.2325G>A synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776369 c.2112C>T synonymous_variant 0.18
mmpL5 777102 p.Ala460Val missense_variant 0.18
mmpS5 778869 p.Leu13Ile missense_variant 0.17
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800660 c.-149C>T upstream_gene_variant 1.0
fbiC 1304995 c.2065T>C synonymous_variant 0.12
Rv1258c 1406165 c.1176G>T synonymous_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
embR 1416238 c.1110C>A synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473976 n.319T>A non_coding_transcript_exon_variant 0.13
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.2
rrl 1476706 n.3049C>T non_coding_transcript_exon_variant 0.12
inhA 1674430 c.229C>A synonymous_variant 0.12
inhA 1674609 c.408G>A synonymous_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834734 p.Ala398Asp missense_variant 0.13
rpsA 1834975 c.1434C>A synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102460 p.His195Tyr missense_variant 0.12
ndh 2102790 c.253C>T synonymous_variant 0.12
ndh 2103005 p.Arg13His missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154985 p.Thr376Met missense_variant 1.0
katG 2155226 p.Met296Leu missense_variant 0.13
PPE35 2167718 p.Ser965Arg missense_variant 0.12
PPE35 2167736 c.2877G>A synonymous_variant 0.12
PPE35 2167745 p.Thr956Arg missense_variant 0.11
PPE35 2167840 p.Val925Leu missense_variant 0.12
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288881 p.Arg121Gly missense_variant 0.12
kasA 2518052 c.-63G>A upstream_gene_variant 0.17
kasA 2519007 p.Ala298Val missense_variant 0.2
kasA 2519158 c.1044C>T synonymous_variant 0.17
ahpC 2726636 c.444G>A synonymous_variant 1.0
folC 2746165 c.1434T>C synonymous_variant 0.11
folC 2746226 p.Gly458Val missense_variant 0.12
thyX 3067527 p.Arg140Leu missense_variant 0.14
thyX 3068116 c.-171A>T upstream_gene_variant 0.12
thyA 3073769 p.Arg235Trp missense_variant 0.12
thyA 3073996 p.Leu159Pro missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiB 3641953 p.Leu140Pro missense_variant 0.12
clpC1 4040256 p.Ala150Asp missense_variant 0.12
panD 4043878 p.Arg135Gln missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4249472 p.Asp987Tyr missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
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
gid 4408467 c.-265A>G upstream_gene_variant 1.0