TB-Profiler result

Run: ERR987766
Summary

Run ID: ERR987766

Sample name:

Date: 02-04-2023 13:23:53

Number of reads: 3268066

Percentage reads mapped: 92.72

Strain: lineage4.3.3

Drug-resistance: HR-TB

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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 Euro-American (LAM) mainly-LAM 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
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G 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 1472127 n.282C>T non_coding_transcript_exon_variant 0.16
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.17
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.2
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.33
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.28
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.3
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.29
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.3
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.14
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.18
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.24
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.39
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.41
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.33
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.34
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.29
rrs 1472803 n.958T>C non_coding_transcript_exon_variant 0.18
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.18
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.16
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.16
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.11
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.11
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.12
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.12
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.17
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.13
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.11
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.12
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.12
rrs 1473262 n.1417T>A non_coding_transcript_exon_variant 0.12
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.1
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.11
rrl 1474265 n.608G>A non_coding_transcript_exon_variant 0.11
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.1
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.27
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.28
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.33
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.32
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.34
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.24
rrl 1475869 n.2212C>T non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.12
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.13
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.1
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.2
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.25
rrl 1476353 n.2696G>A non_coding_transcript_exon_variant 0.35
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.34
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.34
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.42
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.42
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.44
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.47
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.43
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.45
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.35
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.34
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.31
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.26
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
Rv2752c 3066139 p.Val18Gly missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4242182 p.Ala774Ser missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4327394 p.Cys27Tyr missense_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0