TB-Profiler result

Run: ERR2513296
Summary

Run ID: ERR2513296

Sample name:

Date: 31-03-2023 19:35:12

Number of reads: 1882799

Percentage reads mapped: 97.7

Strain: lineage4.1.2.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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 0.27 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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_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 1472498 n.653C>A non_coding_transcript_exon_variant 0.19
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.47
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.6
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.6
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.71
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.78
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.79
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.84
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.84
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.88
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.78
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.78
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.57
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.57
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.57
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.5
rrs 1472673 n.828T>A non_coding_transcript_exon_variant 0.4
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.4
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.33
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.33
rrs 1472687 n.843dupT non_coding_transcript_exon_variant 0.33
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.43
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.22
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.21
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.21
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.25
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.31
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.17
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.12
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.15
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.15
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.17
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.15
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.15
rrs 1472958 n.1113A>C non_coding_transcript_exon_variant 0.15
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.15
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.17
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.17
rrs 1472982 n.1137G>A non_coding_transcript_exon_variant 0.11
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.11
rrs 1472988 n.1143T>G non_coding_transcript_exon_variant 0.11
rrs 1473001 n.1156G>A non_coding_transcript_exon_variant 0.12
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.12
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.11
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.13
rrl 1473845 n.188G>T non_coding_transcript_exon_variant 0.2
rrl 1474201 n.544T>A non_coding_transcript_exon_variant 0.2
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.33
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.33
rrl 1474783 n.1126G>T non_coding_transcript_exon_variant 0.33
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.33
rrl 1474794 n.1137C>G non_coding_transcript_exon_variant 0.33
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.22
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.22
rrl 1474837 n.1180A>G non_coding_transcript_exon_variant 0.22
rrl 1474852 n.1195T>C non_coding_transcript_exon_variant 0.22
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.33
rrl 1475686 n.2029C>G non_coding_transcript_exon_variant 0.33
rrl 1475688 n.2031G>A non_coding_transcript_exon_variant 0.33
rrl 1475696 n.2039T>G non_coding_transcript_exon_variant 0.29
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.29
rrl 1475703 n.2046A>C non_coding_transcript_exon_variant 0.29
rrl 1475706 n.2049A>C non_coding_transcript_exon_variant 0.29
rrl 1475713 n.2056C>T non_coding_transcript_exon_variant 0.25
rrl 1475715 n.2058G>C non_coding_transcript_exon_variant 0.25
rrl 1475735 n.2078T>C non_coding_transcript_exon_variant 0.22
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.18
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.2
rrl 1475758 n.2101A>G non_coding_transcript_exon_variant 0.2
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.17
rrl 1475783 n.2126T>C non_coding_transcript_exon_variant 0.17
rrl 1475791 n.2134A>G non_coding_transcript_exon_variant 0.17
fabG1 1673560 p.Lys41Leu missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.14
PPE35 2170053 p.Thr187Ser missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841546 c.-126C>A upstream_gene_variant 1.0
alr 3841568 c.-148G>A upstream_gene_variant 1.0
alr 3841570 c.-151delA upstream_gene_variant 1.0
alr 3841574 c.-154T>G upstream_gene_variant 1.0
alr 3841578 c.-158G>T upstream_gene_variant 1.0
alr 3841582 c.-162A>G upstream_gene_variant 1.0
alr 3841584 c.-164C>A upstream_gene_variant 1.0
alr 3841589 c.-170delG upstream_gene_variant 1.0
alr 3841612 c.-193_-192insC upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
aftB 4267089 p.Thr583Asn missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0