TB-Profiler result

Run: ERR4815184

Summary

Run ID: ERR4815184

Sample name:

Date: 01-04-2023 13:43:14

Number of reads: 3369739

Percentage reads mapped: 99.23

Strain: lineage4.8

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 0.57 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 9391 p.Thr697Ser missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304849 p.Asn640Thr missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.43
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.33
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.25
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.33
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.22
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.22
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.67
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.8
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.8
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.86
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.86
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.83
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.86
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.86
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.4
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.4
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.62
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.62
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.83
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.83
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.83
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.67
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.4
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.27
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.38
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.42
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.42
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.43
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.33
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.33
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.5
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.25
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.21
rrs 1473122 n.1278A>T non_coding_transcript_exon_variant 0.25
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.36
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.26
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.12
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.11
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.2
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.22
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.3
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.28
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.21
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.23
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 1.0
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 1.0
rrl 1474200 n.545delT non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.33
rrl 1476436 n.2779A>T non_coding_transcript_exon_variant 0.33
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.2
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.2
rrl 1476600 n.2943A>C non_coding_transcript_exon_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
alr 3840764 c.657G>C synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247229 p.Leu239Arg missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0