TB-Profiler result

Run: ERR970458
Summary

Run ID: ERR970458

Sample name:

Date: 02-04-2023 12:01:51

Number of reads: 7315262

Percentage reads mapped: 98.31

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 1.0
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 1472138 n.293C>T non_coding_transcript_exon_variant 0.13
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.25
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.27
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.32
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.37
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.41
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.42
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.3
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.27
rrs 1472251 n.406G>T non_coding_transcript_exon_variant 0.13
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.11
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.11
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.11
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.12
rrs 1472349 n.504A>C non_coding_transcript_exon_variant 0.11
rrs 1472374 n.529T>G non_coding_transcript_exon_variant 0.13
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.11
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.14
rrs 1472714 n.869A>C non_coding_transcript_exon_variant 0.14
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.13
rrs 1472716 n.871C>A non_coding_transcript_exon_variant 0.14
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.54
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.52
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.52
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.52
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.24
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.24
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.13
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.12
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.17
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.18
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.19
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.19
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.19
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.2
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.19
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.19
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.19
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.11
rrl 1475550 n.1893A>C non_coding_transcript_exon_variant 0.11
rrl 1475551 n.1894T>G non_coding_transcript_exon_variant 0.11
rrl 1475555 n.1898T>G non_coding_transcript_exon_variant 0.11
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.15
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.16
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.15
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.16
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.16
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.29
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.31
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.37
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.38
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.36
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.36
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.34
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.33
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.3
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.29
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.13
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.11
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 0.3
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448410 c.-94A>C upstream_gene_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.13
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