TB-Profiler result

Run: ERR972802
Summary

Run ID: ERR972802

Sample name:

Date: 02-04-2023 12:02:39

Number of reads: 7276525

Percentage reads mapped: 98.62

Strain: lineage4.1.1.3

Drug-resistance: RR-TB

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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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
rpoB 761139 p.His445Tyr missense_variant 0.99 rifampicin
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
rpoC 765150 p.Gly594Glu missense_variant 0.99
mmpL5 775639 p.Ile948Val 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 1472147 n.302G>A non_coding_transcript_exon_variant 0.18
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.22
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.25
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.28
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.29
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.3
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.17
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.14
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.14
rrs 1472714 n.869A>C non_coding_transcript_exon_variant 0.15
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.14
rrs 1472716 n.871C>A non_coding_transcript_exon_variant 0.14
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.52
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.51
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.49
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.46
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.18
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.18
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.1
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.11
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.11
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.12
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.12
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.12
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.12
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.11
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.11
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.11
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.33
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.13
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.14
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.14
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.14
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.14
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.23
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.23
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.28
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.3
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.25
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.24
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.21
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.2
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.17
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0