TB-Profiler result

Run: SRR6896146
Summary

Run ID: SRR6896146

Sample name:

Date: 04-04-2023 17:56:57

Number of reads: 266116

Percentage reads mapped: 99.65

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
gyrB 5910 p.Ser224Asn missense_variant 0.25
gyrB 6770 p.Thr511Ala missense_variant 0.25
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
fgd1 491758 p.Ser326Thr missense_variant 0.2
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760013 c.207C>G synonymous_variant 0.14
rpoB 761673 p.Gly623Trp missense_variant 0.11
rpoB 761999 c.2193G>T synonymous_variant 0.18
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763147 p.Ser1114* stop_gained 0.25
rpoC 763355 c.-15G>T upstream_gene_variant 0.15
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 777207 p.Leu425Pro missense_variant 0.17
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781646 p.Gln29His missense_variant 0.11
fbiC 1303380 c.450T>C synonymous_variant 0.12
fbiC 1303581 c.651G>C synonymous_variant 0.14
Rv1258c 1406133 p.Leu403Pro missense_variant 0.29
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472077 n.232C>T non_coding_transcript_exon_variant 0.13
rrl 1473428 n.-230A>T upstream_gene_variant 0.11
rrl 1474339 n.682C>T non_coding_transcript_exon_variant 0.18
rrl 1474721 n.1064G>T non_coding_transcript_exon_variant 0.11
rrl 1476780 n.3123C>T non_coding_transcript_exon_variant 0.22
inhA 1674747 c.546C>T synonymous_variant 0.2
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834628 p.Lys363* stop_gained 0.15
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
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289776 c.-535C>T upstream_gene_variant 0.25
folC 2746286 c.1311_1312delCG frameshift_variant 0.22
ribD 2986746 c.-93G>A upstream_gene_variant 0.15
ribD 2986881 p.Arg15Trp missense_variant 0.15
thyX 3067988 c.-44delC upstream_gene_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087426 p.Lys203Glu missense_variant 0.15
fbiD 3339000 c.-117_-116delCA upstream_gene_variant 0.18
Rv3083 3449844 c.1341C>T synonymous_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640865 p.Asp108Val missense_variant 0.29
alr 3840522 p.Ile300Ser missense_variant 0.17
alr 3841427 c.-8delA upstream_gene_variant 0.12
clpC1 4040646 p.Ala20Val missense_variant 0.12
clpC1 4040722 c.-18G>A upstream_gene_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243238 c.6C>T synonymous_variant 0.17
embA 4243312 p.Leu27Pro missense_variant 0.18
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4245232 p.Arg667Leu missense_variant 0.13
embB 4247150 p.Arg213Trp missense_variant 0.22
aftB 4267295 p.Leu514Phe missense_variant 0.11
aftB 4267456 p.Asp461Asn missense_variant 0.15
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268857 c.-21C>A upstream_gene_variant 0.22
aftB 4269024 c.-188G>A upstream_gene_variant 0.11
ethA 4327283 p.Phe64Ser missense_variant 0.15
ethR 4327583 p.Pro12Leu missense_variant 0.1
ethA 4327998 c.-525G>A upstream_gene_variant 0.14
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