TB-Profiler result

Run: SRR21677884
Summary

Run ID: SRR21677884

Sample name:

Date: 04-04-2023 02:49:26

Number of reads: 151133

Percentage reads mapped: 98.26

Strain: lineage4

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
lineage4 Euro-American LAM;T;S;X;H None 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 5300 p.Glu21Lys missense_variant 0.15
gyrB 6533 p.Ala432Thr missense_variant 0.22
gyrB 7265 c.2026T>A stop_lost&splice_region_variant 0.2
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8013 p.Gln238Lys missense_variant 0.15
gyrA 8878 p.Ala526Asp missense_variant 0.4
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620010 c.122delG frameshift_variant 0.2
rpoB 759876 p.Asn24Asp missense_variant 0.14
rpoB 762172 p.Glu789Gly missense_variant 0.18
rpoB 762366 p.Glu854Lys missense_variant 0.11
rpoC 763512 p.Cys48Tyr missense_variant 0.17
rpoC 763668 p.Pro100His missense_variant 0.2
rpoC 764005 c.636G>A synonymous_variant 0.22
rpoC 764093 p.Arg242Cys missense_variant 0.17
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 776115 p.Ile789Thr missense_variant 0.33
mmpL5 776700 p.Ile594Asn missense_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800878 p.Val24Leu missense_variant 0.22
rplC 801272 p.Ala155Gly missense_variant 0.25
fbiC 1303650 c.720G>A synonymous_variant 0.14
fbiC 1303654 p.Leu242Met missense_variant 0.14
fbiC 1303735 p.Glu269Lys missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472342 n.497G>A non_coding_transcript_exon_variant 0.25
rrs 1473115 n.1272delA non_coding_transcript_exon_variant 0.22
rrl 1476738 n.3081C>A non_coding_transcript_exon_variant 0.29
inhA 1674893 p.Asn231Ser missense_variant 0.29
rpsA 1834259 c.720_721delAT frameshift_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168432 c.2181G>A synonymous_variant 0.22
PPE35 2169772 p.Asn281Asp missense_variant 0.14
PPE35 2169803 c.810A>T synonymous_variant 0.29
PPE35 2170608 p.His2Leu missense_variant 0.22
Rv1979c 2221931 p.Phe412Val missense_variant 0.2
Rv1979c 2223269 c.-105G>T upstream_gene_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289482 c.-241C>T upstream_gene_variant 0.5
kasA 2517973 c.-142G>T upstream_gene_variant 0.18
eis 2714392 p.Val314Ala missense_variant 0.29
ahpC 2726020 c.-173T>C upstream_gene_variant 0.25
ahpC 2726397 p.Ser69Gly missense_variant 0.2
folC 2746615 c.984C>T synonymous_variant 0.5
folC 2747753 c.-155G>C upstream_gene_variant 0.15
folC 2747796 c.-198C>T upstream_gene_variant 0.2
Rv2752c 3064667 p.Arg509Cys missense_variant 0.29
Rv2752c 3065410 p.Phe261Tyr missense_variant 0.2
thyA 3073755 p.Phe239Leu missense_variant 0.25
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074051 c.420dupG frameshift_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448574 p.Thr24Met missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612225 p.Ala298Ser missense_variant 0.29
fbiA 3640634 p.Asn31Ile missense_variant 1.0
alr 3841422 c.-2C>T upstream_gene_variant 0.33
alr 3841612 c.-193_-192insC upstream_gene_variant 0.33
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038856 p.Lys617* stop_gained 0.4
clpC1 4040210 c.495G>A synonymous_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243837 p.Leu202Arg missense_variant 0.5
embA 4244442 c.1212dupG frameshift_variant 0.17
embA 4244982 c.1750T>C synonymous_variant 0.15
embB 4246594 c.81C>A synonymous_variant 0.5
embB 4247450 p.Ala313Ser missense_variant 0.67
embB 4247692 c.1179C>A synonymous_variant 0.2
embB 4248041 c.1530delC frameshift_variant 0.29
embB 4249181 p.His890Asn missense_variant 0.33
ethA 4327659 c.-186G>A upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407531 c.672G>A synonymous_variant 0.25
gid 4408156 p.Leu16Arg missense_variant 1.0