TB-Profiler result

Run: ERR4819453
Summary

Run ID: ERR4819453

Sample name:

Date: 01-04-2023 16:07:09

Number of reads: 2754515

Percentage reads mapped: 95.72

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 0.62 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
rpoC 766840 c.3471C>T synonymous_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 1472172 n.327T>C non_coding_transcript_exon_variant 0.13
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.1
rrs 1472376 n.531G>A non_coding_transcript_exon_variant 0.17
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.21
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.21
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.21
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.4
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.47
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.49
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.49
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.54
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.55
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.44
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.21
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.59
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.62
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.69
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.56
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.25
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.25
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.5
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.5
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.67
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.68
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.1
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.63
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.53
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.51
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.37
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.21
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.25
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.15
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.18
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.15
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.27
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.18
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.24
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.29
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.43
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.29
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.31
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.21
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.11
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.11
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.11
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.2
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.3
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 0.22
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.22
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.25
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.33
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.29
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.33
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.5
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.29
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.29
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.18
rrl 1474913 n.1256T>C non_coding_transcript_exon_variant 0.17
rrl 1474938 n.1281G>A non_coding_transcript_exon_variant 0.89
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.1
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247231 p.Asp240Asn missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407721 p.Ala161Val missense_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0