TB-Profiler result

Run: ERR2515022
Summary

Run ID: ERR2515022

Sample name:

Date: 31-03-2023 20:42:22

Number of reads: 558635

Percentage reads mapped: 99.22

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 9172 p.Val624Ala missense_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
fgd1 491027 p.Asn82Thr missense_variant 0.43
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759715 c.-92G>T upstream_gene_variant 0.13
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoB 760603 p.Glu266Gly missense_variant 0.1
rpoB 760862 c.1056G>A synonymous_variant 0.12
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
rpoC 767158 c.3789T>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775816 p.Ala889Thr missense_variant 0.14
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 1471934 n.89A>G non_coding_transcript_exon_variant 0.14
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.22
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.22
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.22
rrl 1474447 n.790G>A non_coding_transcript_exon_variant 1.0
rrl 1474450 n.793T>C non_coding_transcript_exon_variant 1.0
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 1.0
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 1.0
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 1.0
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 1.0
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 1.0
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 1.0
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 1.0
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 1.0
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 1.0
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.5
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.5
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.5
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.22
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.22
rrl 1475905 n.2248G>A non_coding_transcript_exon_variant 0.22
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.22
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.2
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.17
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.33
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.33
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.33
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.25
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.25
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.25
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.25
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154244 p.Glu623Gly missense_variant 0.14
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
kasA 2518073 c.-42T>A upstream_gene_variant 0.11
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
folC 2747356 p.Met81Ile missense_variant 0.17
ribD 2987090 c.252C>T synonymous_variant 0.17
Rv2752c 3065741 p.Pro151Ala missense_variant 0.12
thyA 3073906 p.Ala189Asp missense_variant 0.2
thyA 3074645 c.-174T>G upstream_gene_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3338976 c.-142G>A upstream_gene_variant 1.0
Rv3083 3449016 c.513A>G synonymous_variant 0.15
Rv3083 3449277 c.774C>T synonymous_variant 0.11
Rv3083 3449541 c.1038C>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612133 c.984C>T synonymous_variant 0.15
fbiA 3640546 p.Lys2Glu missense_variant 1.0
rpoA 3878492 p.Arg6Ser missense_variant 0.29
embC 4240119 p.Val86Asp missense_variant 0.14
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243342 p.Asn37Ser missense_variant 0.15
embA 4245448 p.Val739Ala missense_variant 0.13
embB 4249744 c.3231G>A synonymous_variant 0.13
embB 4249751 c.3238T>C synonymous_variant 0.13
aftB 4269408 c.-572C>T upstream_gene_variant 0.11
ethA 4327827 c.-354A>G upstream_gene_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0