TB-Profiler result

Run: SRR6797299
Summary

Run ID: SRR6797299

Sample name:

Date: 04-04-2023 16:05:26

Number of reads: 714403

Percentage reads mapped: 99.11

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 0.67
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 0.68
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.71
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 6112 p.Met291Ile missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 0.32
gyrA 9143 c.1842T>C synonymous_variant 0.5
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 0.73
ccsA 620199 c.309G>A synonymous_variant 0.15
ccsA 620625 p.Ile245Met missense_variant 0.77
rpoB 761805 p.Arg667Gly missense_variant 0.12
rpoC 762929 c.-441G>A upstream_gene_variant 0.26
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 0.46
rpoC 763886 c.517C>A synonymous_variant 0.42
rpoC 765171 p.Pro601Leu missense_variant 0.36
rpoC 765230 p.Ala621Thr missense_variant 0.3
rpoC 765883 c.2514C>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 0.88
mmpS5 779615 c.-710C>G upstream_gene_variant 0.64
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 0.7
embR 1417019 p.Cys110Tyr missense_variant 0.43
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472495 n.650C>A non_coding_transcript_exon_variant 0.11
rrl 1475393 n.1736C>A non_coding_transcript_exon_variant 0.12
rpsA 1834177 c.636A>C synonymous_variant 0.41
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155925 p.Asp63Tyr missense_variant 0.18
PPE35 2167693 p.Gly974Cys missense_variant 0.18
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 0.67
PPE35 2169796 p.Gly273Cys missense_variant 0.33
Rv1979c 2222308 p.Asp286Gly missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289874 c.-633C>T upstream_gene_variant 0.6
kasA 2518132 c.18C>T synonymous_variant 0.62
eis 2714846 p.Val163Ile missense_variant 0.75
eis 2715577 c.-245G>C upstream_gene_variant 0.29
ahpC 2726051 c.-142G>A upstream_gene_variant 0.29
ahpC 2726338 p.Val49Gly missense_variant 0.25
Rv2752c 3064632 c.1560C>T synonymous_variant 0.44
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 0.18
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 0.5
fprA 3475159 p.Asn385Asp missense_variant 0.36
whiB7 3568767 c.-88C>A upstream_gene_variant 0.11
Rv3236c 3612065 p.Val351Ala missense_variant 0.17
Rv3236c 3612813 p.Thr102Ala missense_variant 0.9
fbiA 3641340 p.Asp266Glu missense_variant 0.18
clpC1 4040037 p.Thr223Ser missense_variant 0.13
clpC1 4040517 p.Val63Ala missense_variant 0.31
embC 4240086 p.Ile75Asn missense_variant 0.11
embC 4240671 p.Thr270Ile missense_variant 0.27
embC 4241002 c.1140G>T synonymous_variant 0.12
embC 4241042 p.Asn394Asp missense_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243216 c.-17G>A upstream_gene_variant 0.75
embA 4243322 c.90C>T synonymous_variant 0.11
embA 4243460 c.228C>T synonymous_variant 0.75
embA 4243848 p.Val206Met missense_variant 0.31
embA 4244099 c.867T>C synonymous_variant 0.29
embA 4245969 p.Pro913Ser missense_variant 0.44
embB 4247646 p.Glu378Ala missense_variant 0.29
embB 4248115 c.1602C>T synonymous_variant 0.67
aftB 4267647 p.Asp397Gly missense_variant 0.44
aftB 4268621 p.Trp72Cys missense_variant 0.33
ubiA 4269387 p.Glu149Asp missense_variant 0.5
aftB 4269606 c.-770T>C upstream_gene_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407733 p.Gly157Val missense_variant 0.14
gid 4407780 c.423G>A synonymous_variant 0.5
gid 4407873 c.330G>T synonymous_variant 0.43
gid 4407927 p.Glu92Asp missense_variant 0.7