TB-Profiler result

Run: SRR6831934
Summary

Run ID: SRR6831934

Sample name:

Date: 04-04-2023 17:07:38

Number of reads: 626334

Percentage reads mapped: 99.51

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 5671 p.Tyr144* stop_gained 0.29
gyrB 6992 p.Arg585Cys missense_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.9
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575848 p.Asp167Glu missense_variant 0.22
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620209 c.323delG frameshift_variant 0.33
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 759615 c.-192A>C upstream_gene_variant 0.33
rpoB 761581 p.Glu592Gly missense_variant 0.2
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763921 c.552G>T synonymous_variant 0.2
rpoC 766645 p.Glu1092Asp missense_variant 1.0
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 778830 p.Gln26Lys missense_variant 0.22
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302995 p.Asn22Ile missense_variant 0.14
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475737 n.2080G>T non_coding_transcript_exon_variant 0.33
inhA 1674658 c.460delG frameshift_variant 0.17
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917966 c.27C>T synonymous_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2170476 p.Gly46Val missense_variant 0.5
PPE35 2170487 c.126T>C synonymous_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066161 c.31C>T synonymous_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568575 c.105T>C synonymous_variant 0.17
Rv3236c 3612196 c.921C>T synonymous_variant 0.22
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640622 p.Gln27Arg missense_variant 0.29
clpC1 4038223 p.Ala828Ser missense_variant 0.4
embC 4241054 p.Pro398Ser missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4245941 c.-573C>T upstream_gene_variant 0.2
embB 4246868 p.Ser119Arg missense_variant 0.15
embB 4247200 c.687C>G synonymous_variant 0.29
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269985 c.-152T>A upstream_gene_variant 0.18
ethR 4327138 c.-411C>T upstream_gene_variant 0.11
whiB6 4338298 p.Leu75Gln missense_variant 1.0
whiB6 4338563 c.-42G>T upstream_gene_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 4408216 c.-14C>T upstream_gene_variant 0.5