TB-Profiler result

Run: ERR4816423
Summary

Run ID: ERR4816423

Sample name:

Date: 01-04-2023 14:25:11

Number of reads: 7865203

Percentage reads mapped: 98.97

Strain: lineage3.1.2

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
lineage3.1 East-African-Indian Non-CAS1-Delhi RD750 1.0
lineage3.1.2 East-African-Indian CAS;CAS2 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 0.11 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
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
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 1472566 n.721G>A non_coding_transcript_exon_variant 0.26
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.26
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.25
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.26
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.29
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.29
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.11
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.11
rrl 1474315 n.658A>G non_coding_transcript_exon_variant 0.12
rrl 1474355 n.698A>G non_coding_transcript_exon_variant 0.11
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.12
rrl 1474393 n.736A>G non_coding_transcript_exon_variant 0.11
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.14
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 0.13
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.13
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.14
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.14
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.23
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.27
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.3
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.38
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.35
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.38
rrl 1474634 n.977T>G non_coding_transcript_exon_variant 0.38
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.38
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.38
rrl 1474658 n.1001A>G non_coding_transcript_exon_variant 0.26
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.24
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.2
rrl 1474676 n.1019T>A non_coding_transcript_exon_variant 0.21
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.21
rrl 1474692 n.1035G>A non_coding_transcript_exon_variant 0.19
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.1
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.28
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.36
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.42
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.4
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.39
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.38
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.33
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.18
rrl 1475104 n.1447T>A non_coding_transcript_exon_variant 0.13
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.12
rrl 1475518 n.1861A>G non_coding_transcript_exon_variant 0.1
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.12
rrl 1475754 n.2097G>A non_coding_transcript_exon_variant 0.12
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.12
rrl 1475761 n.2104C>T non_coding_transcript_exon_variant 0.11
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.11
rrl 1475763 n.2107_2108delAA non_coding_transcript_exon_variant 0.1
rrl 1475774 n.2117C>T non_coding_transcript_exon_variant 0.11
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 0.99
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168604 p.Pro670Leu 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
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339351 c.234T>C synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878613 c.-113_-107delCAACCCA upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 0.99
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