TB-Profiler result

Run: ERR10796619
Summary

Run ID: ERR10796619

Sample name:

Date: 31-03-2023 11:12:38

Number of reads: 670924

Percentage reads mapped: 100.0

Strain: lineage4.3.3

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
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
ethA 4327426 c.47delG frameshift_variant 0.12 ethionamide
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
gyrB 6378 p.Val380Ala missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7695 p.Ala132Pro missense_variant 0.18
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576240 p.Ala298Val missense_variant 0.33
rpoB 761479 p.Lys558Thr missense_variant 0.2
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765611 p.His748Tyr missense_variant 0.15
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 1472135 n.290C>T non_coding_transcript_exon_variant 0.43
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.5
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.71
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.71
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.72
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.87
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.85
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.63
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.8
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.8
rrs 1472251 n.406G>T non_coding_transcript_exon_variant 0.79
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.76
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.75
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.77
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.6
rrs 1472279 n.434T>A non_coding_transcript_exon_variant 0.45
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.33
rrs 1472553 n.708C>T non_coding_transcript_exon_variant 0.1
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.11
rrs 1472572 n.727T>C non_coding_transcript_exon_variant 0.12
rrs 1472574 n.729T>C non_coding_transcript_exon_variant 0.12
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.12
rrs 1472582 n.737G>A non_coding_transcript_exon_variant 0.12
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.12
rrs 1472584 n.739A>G non_coding_transcript_exon_variant 0.12
rrs 1472594 n.749G>C non_coding_transcript_exon_variant 0.12
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.12
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.13
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.54
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.53
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.57
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.6
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.32
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.32
rrs 1472836 n.991G>C non_coding_transcript_exon_variant 0.33
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.12
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.16
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.22
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.27
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.25
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.25
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.13
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.13
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.11
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.11
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.11
rrl 1476051 n.2394G>A non_coding_transcript_exon_variant 0.12
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.17
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.14
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.14
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.22
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.21
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.38
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.33
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.35
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.3
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.29
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.36
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.35
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.57
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.1
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.31
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.33
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.33
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.32
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.32
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.4
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.21
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.34
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102226 p.Cys273Ser missense_variant 0.29
katG 2155194 c.918C>T synonymous_variant 0.14
PPE35 2169984 p.Ala210Val missense_variant 0.17
Rv1979c 2223211 c.-47G>A upstream_gene_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
pepQ 2860213 p.Pro69Leu missense_variant 0.25
Rv2752c 3064609 p.Arg528Leu missense_variant 0.5
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086823 p.Arg2Cys missense_variant 0.11
ald 3087133 p.Asp105Val missense_variant 0.2
fbiD 3339051 c.-67C>G upstream_gene_variant 0.6
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475312 p.Pro436Thr missense_variant 0.4
fbiB 3642348 p.Pro272Thr missense_variant 0.4
rpoA 3878358 c.150C>T synonymous_variant 0.17
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040447 c.257delA frameshift_variant 0.12
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247631 p.Leu373Arg missense_variant 0.33
embB 4247948 p.Val479Leu missense_variant 0.4
aftB 4268040 p.Leu266Pro missense_variant 1.0
aftB 4268619 p.Val73Gly missense_variant 0.14
ubiA 4269400 p.Gln145Arg missense_variant 0.11
ethA 4326977 p.His166Leu missense_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0