TB-Profiler result

Run: ERR8158084
Summary

Run ID: ERR8158084

Sample name:

Date: 02-04-2023 07:22:54

Number of reads: 269201

Percentage reads mapped: 99.52

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 6201 p.Arg321Leu missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8435 c.1134C>A synonymous_variant 0.15
gyrA 9105 p.Phe602Val missense_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619741 c.-150G>A upstream_gene_variant 0.29
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 761246 c.1440C>T synonymous_variant 0.17
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763112 p.Lys1102Asn missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777324 p.Ile386Thr missense_variant 0.13
mmpL5 777472 p.Val337Met missense_variant 1.0
mmpL5 777611 c.870G>A synonymous_variant 0.18
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801347 p.Leu180Pro missense_variant 0.18
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473977 n.320G>T non_coding_transcript_exon_variant 0.17
inhA 1674404 p.Glu68Gly missense_variant 0.22
inhA 1674890 p.Trp230Leu missense_variant 0.14
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834762 p.Phe407Leu missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101915 c.1127delT frameshift_variant 0.15
ndh 2103108 c.-66G>T upstream_gene_variant 0.25
katG 2154483 c.1629C>A synonymous_variant 0.29
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169913 p.Asn234Asp missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.17
PPE35 2170053 p.Thr187Ser missense_variant 0.18
PPE35 2170398 p.Tyr72Cys missense_variant 0.25
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518312 c.198T>C synonymous_variant 0.22
kasA 2518330 p.Met72Ile missense_variant 0.22
folC 2746931 p.Ala223Asp missense_variant 0.33
folC 2747386 c.213C>T synonymous_variant 0.13
pepQ 2860438 c.-22_-21delGT upstream_gene_variant 0.15
ribD 2986915 p.Gly26Ala missense_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474732 c.726C>A synonymous_variant 0.14
Rv3236c 3612182 p.Ala312Asp missense_variant 0.25
Rv3236c 3612234 p.Leu295Met missense_variant 0.2
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640397 c.-146G>A upstream_gene_variant 0.17
fbiB 3642443 c.909G>A synonymous_variant 0.14
alr 3840512 c.909C>A synonymous_variant 0.2
clpC1 4038532 p.Glu725Lys missense_variant 0.13
clpC1 4039695 p.Ala337Val missense_variant 0.33
clpC1 4040600 c.105A>G synonymous_variant 0.11
embC 4241377 c.1515C>T synonymous_variant 0.2
embC 4241817 p.Asn652Ser missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242701 p.Ala947Ser missense_variant 0.4
embA 4243460 c.228C>T synonymous_variant 1.0
embA 4244362 p.Asn377Ser missense_variant 0.29
embB 4247551 c.1038C>A synonymous_variant 0.2
embB 4247607 p.Leu365Pro missense_variant 0.18
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4267680 p.Ser386* stop_gained 0.15
ethA 4326676 p.Ser266Arg missense_variant 1.0
whiB6 4338212 p.Tyr104His missense_variant 0.13
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