TB-Profiler result

Run: ERR4815299
Summary

Run ID: ERR4815299

Sample name:

Date: 01-04-2023 13:47:25

Number of reads: 6668392

Percentage reads mapped: 98.44

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 0.67 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
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 1472150 n.305T>A non_coding_transcript_exon_variant 0.14
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.17
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.13
rrs 1472498 n.653C>A non_coding_transcript_exon_variant 0.18
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.25
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.33
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.33
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.5
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.53
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.65
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.65
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.73
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.73
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.69
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.14
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.76
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.76
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.76
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.3
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.4
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.38
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.35
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.35
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.29
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.31
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.31
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.33
rrs 1472687 n.842_843insC non_coding_transcript_exon_variant 0.33
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.33
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.42
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.52
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.54
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.66
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.64
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.56
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.1
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.5
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.49
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.28
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.13
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.19
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.15
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.15
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.21
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.17
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.19
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.1
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.16
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.11
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.11
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.11
rrl 1473543 n.-115C>A upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474044 n.387C>T non_coding_transcript_exon_variant 0.5
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.44
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 0.4
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.45
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.42
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.42
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.45
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.42
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.46
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.43
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.36
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.29
rrl 1476030 n.2373A>G non_coding_transcript_exon_variant 0.2
rrl 1476033 n.2376T>G non_coding_transcript_exon_variant 0.2
rrl 1476035 n.2378G>T non_coding_transcript_exon_variant 0.2
rrl 1476040 n.2383C>T non_coding_transcript_exon_variant 0.2
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.15
rrl 1476046 n.2389G>T non_coding_transcript_exon_variant 0.15
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.15
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.12
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.11
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.11
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.22
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.3
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.3
rrl 1476466 n.2809C>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
pepQ 2859916 p.Thr168Ile missense_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
fbiA 3640382 c.-161G>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_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