TB-Profiler result

Run: ERR4820092
Summary

Run ID: ERR4820092

Sample name:

Date: 01-04-2023 16:29:26

Number of reads: 8136982

Percentage reads mapped: 99.01

Strain: lineage3

Drug-resistance: Other

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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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.22 streptomycin
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 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
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 764181 p.Asp271Gly missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.15
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.23
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.31
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.27
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.27
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.33
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.33
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.18
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.22
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.25
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.21
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.21
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.27
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.12
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.11
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.11
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.15
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.15
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.13
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.13
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.25
rrl 1474253 n.596A>T non_coding_transcript_exon_variant 0.17
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.22
rrl 1474282 n.625G>T non_coding_transcript_exon_variant 0.25
rrl 1474287 n.630T>C non_coding_transcript_exon_variant 0.22
rrl 1474306 n.649A>T non_coding_transcript_exon_variant 0.29
rrl 1474315 n.658A>G non_coding_transcript_exon_variant 0.25
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.17
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.17
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.18
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.2
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.25
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.18
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.17
rrl 1474672 n.1015C>T non_coding_transcript_exon_variant 0.2
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.2
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.2
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.2
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.2
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.18
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.2
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.29
rrl 1475945 n.2288C>A non_coding_transcript_exon_variant 0.29
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.14
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.14
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.14
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.12
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.12
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.12
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.19
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.13
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.21
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.27
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.2
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.15
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.11
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
PPE35 2170769 c.-157C>T upstream_gene_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
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.99
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0