TB-Profiler result

Run: ERR1199039
Summary

Run ID: ERR1199039

Sample name:

Date: 15-08-2022 10:09:16

Number of reads: 4083765

Percentage reads mapped: 72.15

Strain: lineage4.6.1

Drug-resistance: Sensitive

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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
lineage4.6 Euro-American T;LAM None 0.99
lineage4.6.1 Euro-American (Uganda) T2 RD724 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
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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406358 p.Ile328Thr missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471878 n.33C>T non_coding_transcript_exon_variant 0.26
rrs 1471896 n.51T>C non_coding_transcript_exon_variant 0.23
rrs 1471900 n.55C>T non_coding_transcript_exon_variant 0.17
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.14
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.21
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.2
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.42
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.28
rrs 1472378 n.533G>T non_coding_transcript_exon_variant 0.28
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.3
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.29
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.27
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.23
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.43
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.45
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.52
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.64
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.52
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.46
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.3
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.31
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.19
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.19
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.23
rrl 1474236 n.579G>A non_coding_transcript_exon_variant 0.25
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.22
rrl 1474253 n.596A>T non_coding_transcript_exon_variant 0.21
rrl 1474839 n.1182C>T non_coding_transcript_exon_variant 0.16
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.23
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.37
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.35
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.18
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.11
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.18
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.21
rrl 1475550 n.1893A>C non_coding_transcript_exon_variant 0.23
rrl 1475574 n.1917C>A non_coding_transcript_exon_variant 0.29
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.2
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.21
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.35
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.37
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.3
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.13
rrl 1476141 n.2484A>G non_coding_transcript_exon_variant 0.2
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.22
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.2
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.32
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.32
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.26
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.34
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.36
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.36
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.41
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.35
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.35
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.64
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.45
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.44
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.44
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.56
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.56
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.29
fabG1 1673420 c.-20C>G upstream_gene_variant 0.32
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169379 p.Phe412Val missense_variant 0.15
PPE35 2169599 p.Asn338Lys missense_variant 0.98
Rv1979c 2223251 c.-87C>T upstream_gene_variant 0.96
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2746186 c.1413G>C synonymous_variant 0.11
folC 2747263 c.336C>A synonymous_variant 0.23
pepQ 2859381 c.1038C>G synonymous_variant 0.19
ribD 2987307 p.Ala157Pro missense_variant 0.15
ribD 2987392 p.Arg185Pro missense_variant 0.24
Rv2752c 3064741 p.Gly484Ala missense_variant 0.23
Rv2752c 3065265 c.927C>G synonymous_variant 0.29
Rv2752c 3065618 p.Gly192Arg missense_variant 0.19
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.1
fbiB 3642772 p.Asp413Ala missense_variant 0.19
ddn 3987013 p.Gly57Ala missense_variant 0.33
clpC1 4039363 p.Ala448Pro missense_variant 0.12
embC 4240355 p.Ala165Pro missense_variant 0.24
embC 4241056 c.1194C>G synonymous_variant 0.16
embC 4241456 p.Ala532Pro missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.17
embA 4244375 c.1143C>G synonymous_variant 0.27
embB 4248725 p.Ser738Ala missense_variant 0.13
ethA 4328329 c.-856C>G upstream_gene_variant 1.0
whiB6 4338406 p.Asp39Gly missense_variant 0.97
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408329 c.-127C>G upstream_gene_variant 0.25