TB-Profiler result

Run: SRR6982147
Summary

Run ID: SRR6982147

Sample name:

Date: 04-04-2023 18:28:49

Number of reads: 260094

Percentage reads mapped: 99.23

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
lineage2.2 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 6940 c.-362G>A upstream_gene_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9256 p.Asn652Ser missense_variant 0.12
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
rpoB 761388 p.Asp528Tyr missense_variant 0.15
rpoB 762809 p.Lys1001Asn missense_variant 0.12
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766517 p.Thr1050Ala missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpR5 779380 p.Gln131* stop_gained 0.15
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800794 c.-15A>G upstream_gene_variant 0.13
fbiC 1304573 c.1644delC frameshift_variant 0.25
fbiC 1304685 c.1755C>A synonymous_variant 0.22
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
atpE 1461048 p.Asp2Asn missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473651 n.-7G>A upstream_gene_variant 0.17
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 0.88
tlyA 1918153 p.Gly72Ser missense_variant 0.15
tlyA 1918474 p.Pro179Thr missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288895 c.338_346delGCACGCCAC disruptive_inframe_deletion 0.47
eis 2715190 c.142dupG frameshift_variant 1.0
pepQ 2860405 p.Gln5Arg missense_variant 0.2
ribD 2986908 p.Thr24Ala missense_variant 0.14
Rv2752c 3066374 c.-183A>G upstream_gene_variant 0.18
thyX 3067631 c.315C>T synonymous_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473890 c.-117C>A upstream_gene_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640463 c.-80T>A upstream_gene_variant 0.22
fbiA 3641056 p.Trp172Arg missense_variant 0.1
alr 3840240 p.Pro394Gln missense_variant 0.12
alr 3841076 c.345G>A synonymous_variant 0.12
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 4247099 p.Ala196Thr missense_variant 0.2
aftB 4267647 p.Asp397Gly missense_variant 1.0
ethR 4328063 p.Ala172Val missense_variant 0.17
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