TB-Profiler result

Run: SRR6856097
Summary

Run ID: SRR6856097

Sample name:

Date: 04-04-2023 17:55:58

Number of reads: 702476

Percentage reads mapped: 99.59

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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491492 p.Pro237Leu missense_variant 0.14
fgd1 491584 p.Met268Val missense_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576084 p.Val246Ala missense_variant 0.12
mshA 576561 p.Leu405Arg missense_variant 0.2
ccsA 619762 c.-129C>T upstream_gene_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766500 p.Ala1044Val 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 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406944 p.Ala133Pro missense_variant 0.12
Rv1258c 1407286 p.Ala19Thr missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473691 n.34T>C non_coding_transcript_exon_variant 0.1
rrl 1475081 n.1424C>T non_coding_transcript_exon_variant 0.14
fabG1 1673834 p.Phe132Ser missense_variant 0.12
rpsA 1833439 c.-102_-101delGC upstream_gene_variant 0.12
rpsA 1833445 c.-97A>C upstream_gene_variant 0.12
rpsA 1833749 p.Ile70Leu missense_variant 1.0
rpsA 1834177 c.636A>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155032 c.1080T>A synonymous_variant 0.11
katG 2155246 p.Glu289Gly missense_variant 0.1
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168270 c.2343G>C synonymous_variant 0.11
PPE35 2170225 p.Ala130Thr missense_variant 0.15
PPE35 2170592 c.21G>A synonymous_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289817 c.-576T>A upstream_gene_variant 0.12
eis 2714526 c.805_806delAC frameshift_variant 1.0
ribD 2987523 p.Thr229Ala missense_variant 0.18
Rv2752c 3065389 p.Arg268His missense_variant 0.12
Rv2752c 3065711 p.Gly161Ser missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448808 p.Leu102Pro missense_variant 0.12
fprA 3473998 c.-9G>A upstream_gene_variant 1.0
fprA 3473998 c.-10_-9insA upstream_gene_variant 1.0
Rv3236c 3612767 p.Ala117Val missense_variant 0.11
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3641036 p.Lys165Met missense_variant 0.25
fbiB 3641581 p.Pro16Arg missense_variant 1.0
embC 4241557 c.1695C>T synonymous_variant 0.12
embC 4241618 p.Trp586Arg missense_variant 0.12
embC 4241820 p.Ser653Leu missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244805 p.Leu525Val missense_variant 0.15
embA 4245030 c.1798_1800delCGAinsAGG synonymous_variant 0.11
embA 4245726 p.Leu832Met missense_variant 0.17
embA 4246231 p.Ala1000Val missense_variant 0.13
embB 4247679 p.Met389Thr missense_variant 0.1
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267928 c.909G>T synonymous_variant 0.18
ethA 4326310 c.1164T>C synonymous_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