TB-Profiler result

Run: ERR2513354
Summary

Run ID: ERR2513354

Sample name:

Date: 31-03-2023 19:37:25

Number of reads: 629490

Percentage reads mapped: 97.7

Strain: lineage3

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage3 East-African-Indian CAS RD750 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 6340 c.-962C>T upstream_gene_variant 0.12
gyrB 7074 p.Gly612Val missense_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8457 p.Glu386* stop_gained 0.25
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576534 p.Gly396Val missense_variant 0.11
ccsA 620407 p.Pro173Ser missense_variant 0.13
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764303 p.Met312Leu missense_variant 0.15
rpoC 764608 c.1239C>T synonymous_variant 0.15
rpoC 765234 p.Ala622Val missense_variant 0.11
rpoC 766366 c.2997C>A synonymous_variant 0.11
rpoC 766817 p.His1150Asn missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777678 p.Val268Glu missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781598 c.39G>A synonymous_variant 1.0
fbiC 1305349 c.2419C>T synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.67
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.67
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.67
rrs 1472148 n.303T>C 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
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.67
rrs 1472225 n.380C>G non_coding_transcript_exon_variant 0.67
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.67
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.5
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.43
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.57
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.18
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.38
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.29
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.29
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167833 p.Leu927Arg missense_variant 0.17
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2746846 c.753C>T synonymous_variant 0.11
pepQ 2860431 c.-13A>T upstream_gene_variant 0.12
ribD 2987104 p.Arg89His missense_variant 0.11
Rv2752c 3065020 p.Arg391His missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568857 c.-178C>T upstream_gene_variant 1.0
fbiB 3642074 c.541dupG frameshift_variant 0.2
fbiB 3642083 p.Tyr183* stop_gained 0.18
ddn 3986738 c.-106C>A upstream_gene_variant 0.12
clpC1 4039645 p.His354Asp missense_variant 0.18
clpC1 4039654 p.Thr351Ser missense_variant 0.22
clpC1 4040833 c.-129G>A upstream_gene_variant 0.11
panD 4044023 c.259C>T synonymous_variant 1.0
embC 4240655 p.Ala265Pro missense_variant 0.18
embC 4241652 p.Ala597Val missense_variant 0.4
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244380 p.Pro383Leu missense_variant 0.12
embA 4244398 p.Val389Glu missense_variant 0.12
embA 4245438 p.Ala736Pro missense_variant 0.15
embB 4245518 c.-996A>T upstream_gene_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0