TB-Profiler result

Run: ERR023742

Summary

Run ID: ERR023742

Sample name:

Date: 31-03-2023 08:02:51

Number of reads: 2396880

Percentage reads mapped: 88.79

Strain: lineage3.1.3

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
lineage3.1.3 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
gyrB 7048 p.Lys603Asn missense_variant 1.0
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
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
fbiC 1303016 p.Val29Gly missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.12
rrs 1473193 n.1348G>T non_coding_transcript_exon_variant 0.12
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.11
rrs 1473204 n.1359C>A non_coding_transcript_exon_variant 0.11
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.12
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.15
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.17
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.17
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.2
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.2
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.25
rrl 1476428 n.2771C>A non_coding_transcript_exon_variant 0.24
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.2
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.12
rrl 1476491 n.2834T>C non_coding_transcript_exon_variant 0.11
rpsA 1834159 c.618G>A synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918474 p.Pro179Ser missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169044 c.1569G>C synonymous_variant 1.0
Rv1979c 2222732 c.432delT frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_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
Rv3083 3449273 p.Ala257Asp missense_variant 0.19
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642772 p.Asp413Ala missense_variant 0.28
clpC1 4039814 c.891C>T synonymous_variant 1.0
clpC1 4039932 p.Gly258Val missense_variant 0.23
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242425 p.Arg855Gly missense_variant 0.38
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249195 c.2682C>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407832 p.Val124Gly missense_variant 1.0
gid 4408175 p.Ala10Pro missense_variant 1.0