TB-Profiler result

Run: ERR4815524
Summary

Run ID: ERR4815524

Sample name:

Date: 01-04-2023 13:54:46

Number of reads: 229872

Percentage reads mapped: 98.66

Strain:

Drug-resistance: HR-TB

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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
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
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9206 c.1905C>G synonymous_variant 1.0
gyrA 9260 c.1959G>C synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575368 c.21T>C synonymous_variant 1.0
ccsA 619920 c.30G>T synonymous_variant 0.18
rpoB 760939 p.Leu378Arg missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765903 p.Thr845Ser missense_variant 0.29
rpoC 766179 p.Ile937Thr missense_variant 0.15
rpoC 766197 p.Asp943Gly missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800940 c.133_134delGA frameshift_variant 0.5
fbiC 1302821 c.-110G>A upstream_gene_variant 1.0
Rv1258c 1406312 c.1029T>C synonymous_variant 1.0
embR 1416621 p.Pro243Ser missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471694 n.-152T>C upstream_gene_variant 0.4
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 1.0
rrs 1472107 n.262A>G non_coding_transcript_exon_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 1.0
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 1.0
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.67
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.67
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.67
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.67
inhA 1674162 c.-40C>T upstream_gene_variant 1.0
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 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2222820 c.345G>T synonymous_variant 0.67
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518987 p.Met291Ile missense_variant 0.22
kasA 2519048 p.Gly312Ser missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
folC 2747775 c.-177C>A upstream_gene_variant 0.17
Rv2752c 3064766 p.Thr476Ala missense_variant 0.5
thyA 3074659 c.-188G>C upstream_gene_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339417 c.300A>G synonymous_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568488 c.191delG frameshift_variant 1.0
fbiA 3640371 c.-172G>T upstream_gene_variant 1.0
fbiB 3640557 c.-978T>C upstream_gene_variant 1.0
alr 3841313 c.108C>T synonymous_variant 1.0
clpC1 4039691 c.1014G>C synonymous_variant 0.33
clpC1 4039743 p.Gly321Asp missense_variant 0.4
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4240345 c.483C>T synonymous_variant 0.17
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4240998 p.Trp379* stop_gained 0.15
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242938 p.Asp1026His missense_variant 0.4
embA 4243580 c.348G>A synonymous_variant 1.0
embA 4243863 p.Val211Met missense_variant 0.29
embA 4244118 p.Tyr296Asp missense_variant 0.33
embA 4244273 c.1041G>T synonymous_variant 0.33
embA 4244420 c.1188G>C synonymous_variant 1.0
embA 4245224 c.1992T>C synonymous_variant 0.4
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247578 c.1065G>A synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248895 c.2382G>C synonymous_variant 0.14
aftB 4267848 p.Gly330Asp missense_variant 0.33
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ubiA 4269730 p.Ala35Val missense_variant 0.22
ubiA 4269864 c.-32delG upstream_gene_variant 1.0
whiB6 4338361 p.Arg54Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0