TB-Profiler result

Run: ERR3470682
Summary

Run ID: ERR3470682

Sample name:

Date: 01-04-2023 02:31:10

Number of reads: 4850881

Percentage reads mapped: 76.3

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 1472359 n.514A>C non_coding_transcript_exon_variant 0.96 streptomycin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.4 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 0.99
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 1472106 n.261G>A non_coding_transcript_exon_variant 0.16
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.16
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.18
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.24
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.25
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.34
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.34
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.34
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.34
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.35
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.38
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.38
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.33
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.3
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.18
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.17
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.18
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.18
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 0.28
rrs 1472526 n.681G>A non_coding_transcript_exon_variant 0.37
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.37
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.39
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.41
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.41
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.43
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.42
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.41
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.42
rrs 1472591 n.746G>A non_coding_transcript_exon_variant 0.42
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.42
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.42
rrs 1472600 n.755C>T non_coding_transcript_exon_variant 0.42
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.48
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.56
rrs 1472698 n.853A>C non_coding_transcript_exon_variant 0.39
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.39
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.38
rrs 1472708 n.863T>G non_coding_transcript_exon_variant 0.38
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.39
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.39
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.39
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.25
rrl 1475713 n.2056C>T non_coding_transcript_exon_variant 0.18
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.21
rrl 1475747 n.2090A>G non_coding_transcript_exon_variant 0.35
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.35
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.36
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.38
rrl 1475781 n.2124T>C non_coding_transcript_exon_variant 0.38
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.38
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.38
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.36
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.36
rrl 1475843 n.2186G>A non_coding_transcript_exon_variant 0.37
rrl 1475853 n.2196C>T non_coding_transcript_exon_variant 0.35
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.29
rrl 1475874 n.2217C>T non_coding_transcript_exon_variant 0.15
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.2
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.21
rrl 1476238 n.2581T>C non_coding_transcript_exon_variant 0.24
rrl 1476248 n.2591G>C non_coding_transcript_exon_variant 0.23
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.23
rrl 1476259 n.2602C>G non_coding_transcript_exon_variant 0.23
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.24
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.25
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.25
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.23
rrl 1476298 n.2642_2644delCGA non_coding_transcript_exon_variant 0.23
rrl 1476306 n.2649A>G non_coding_transcript_exon_variant 0.23
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.23
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.23
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.25
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.41
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.46
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.61
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.64
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.64
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.64
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.64
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.65
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.65
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.54
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.46
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.44
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.43
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.42
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.42
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.41
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.42
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.41
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.41
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.42
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.39
rrl 1476572 n.2915G>T non_coding_transcript_exon_variant 0.31
rrl 1476573 n.2916A>G non_coding_transcript_exon_variant 0.31
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.23
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 1.0
whiB7 3568418 p.Lys88Gln missense_variant 1.0
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