TB-Profiler result

Run: ERR10796621
Summary

Run ID: ERR10796621

Sample name:

Date: 31-03-2023 11:12:42

Number of reads: 5410727

Percentage reads mapped: 100.0

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 0.99
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 0.38 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
mshA 575618 p.Arg91Trp missense_variant 0.13
mshA 576108 p.Ala254Gly missense_variant 0.23
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 1472123 n.278A>T non_coding_transcript_exon_variant 0.21
rrs 1472141 n.296G>A non_coding_transcript_exon_variant 0.26
rrs 1472148 n.303T>C non_coding_transcript_exon_variant 0.27
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.29
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.29
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.21
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.12
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.13
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.12
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.13
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.13
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.13
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.14
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.15
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.12
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.12
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.17
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.16
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.16
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.12
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.21
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.38
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.36
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.43
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.39
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.47
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.45
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.42
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.26
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.13
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.13
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.17
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.15
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.17
rrl 1475772 n.2115A>C non_coding_transcript_exon_variant 0.14
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.13
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.1
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.1
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.1
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.11
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.16
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.11
rrl 1475892 n.2235A>G non_coding_transcript_exon_variant 0.11
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.56
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.56
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.7
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.73
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.75
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.76
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.76
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.76
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.78
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.81
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.78
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.73
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.43
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.33
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.26
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.12
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519073 p.Ala320Val missense_variant 0.12
kasA 2519094 p.Arg327His missense_variant 0.2
Rv2752c 3066283 c.-92C>T upstream_gene_variant 0.17
whiB7 3568425 c.255T>C synonymous_variant 0.33
whiB7 3568428 c.252A>G synonymous_variant 0.25
rpoA 3878641 c.-134C>G upstream_gene_variant 0.33
clpC1 4039729 p.Asp326Asn missense_variant 0.98
embC 4242419 p.Ser853Cys missense_variant 0.18
embC 4242540 p.Ser893Phe missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242717 p.Leu952Gln missense_variant 0.11
embB 4246641 p.Ala43Val missense_variant 0.17
embB 4247020 c.507C>G synonymous_variant 0.21
embB 4247025 p.Pro171Arg missense_variant 0.25
whiB6 4338184 p.Ala113Gly missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448486 c.-17_*1408del transcript_ablation 1.0