TB-Profiler result

Run: ERR4820005
Summary

Run ID: ERR4820005

Sample name:

Date: 01-04-2023 16:25:50

Number of reads: 876002

Percentage reads mapped: 99.13

Strain: lineage3

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
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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7703 c.402G>T synonymous_variant 0.13
gyrA 8844 p.Asp515Asn missense_variant 0.18
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576588 p.Gly414Glu missense_variant 0.17
rpoB 759620 c.-187A>C upstream_gene_variant 0.19
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 763574 p.Arg69Ser missense_variant 0.15
rpoC 766582 c.3213C>A synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 779088 c.-608A>G upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801129 c.321C>T synonymous_variant 0.17
Rv1258c 1407271 p.Gly24Cys missense_variant 1.0
embR 1417075 c.273G>T synonymous_variant 0.12
embR 1417147 c.201C>T synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473134 n.1289T>C non_coding_transcript_exon_variant 0.67
rrl 1473400 n.-258C>A upstream_gene_variant 0.25
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 1.0
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 1.0
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 1.0
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 1.0
rrl 1474832 n.1175A>T non_coding_transcript_exon_variant 1.0
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 1.0
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.5
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.5
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 1.0
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 1.0
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102268 p.Val259Ile missense_variant 0.18
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169826 p.Gly263Ser missense_variant 0.2
PPE35 2170322 p.Phe97Leu missense_variant 0.18
PPE35 2170468 p.Thr49Ala missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289107 c.135G>A synonymous_variant 0.13
pncA 2289365 c.-125delC upstream_gene_variant 1.0
pncA 2289963 c.-723delC upstream_gene_variant 0.2
kasA 2518484 p.Glu124Lys missense_variant 0.17
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747590 c.9G>A synonymous_variant 0.11
ribD 2986671 c.-168T>C upstream_gene_variant 1.0
Rv2752c 3065976 p.Asp72Glu missense_variant 0.11
thyA 3074576 c.-105C>T upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 0.97
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612938 p.Thr60Asn missense_variant 0.13
alr 3841473 c.-53G>A upstream_gene_variant 1.0
panD 4044169 p.Leu38Pro missense_variant 0.13
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246696 c.183G>T synonymous_variant 0.17
embB 4249472 p.Asp987Tyr missense_variant 0.12
ethA 4326064 c.1410C>T synonymous_variant 0.17
whiB6 4338718 c.-197C>G upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0