TB-Profiler result

Run: ERR4815581
Summary

Run ID: ERR4815581

Sample name:

Date: 01-04-2023 13:56:43

Number of reads: 1163644

Percentage reads mapped: 97.51

Strain: lineage4.1.2

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
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 7628 c.327G>C synonymous_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761569 p.Ile588Thr missense_variant 0.15
rpoB 762651 c.2848delG frameshift_variant 0.14
rpoB 762963 p.Gly1053Cys missense_variant 0.15
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
embR 1416777 p.Ile191Phe missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.33
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.33
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.29
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.29
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.33
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.29
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.75
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.45
rrs 1472467 n.622G>C non_coding_transcript_exon_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.67
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.67
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.67
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.67
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.8
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.8
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.8
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.8
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.8
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.8
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.75
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.33
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.57
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.29
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.25
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.25
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.5
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.29
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.36
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.31
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.33
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.57
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.73
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.73
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.73
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.73
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.64
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.71
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.71
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.71
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.67
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.29
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.22
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.67
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.5
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.5
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.62
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.62
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.62
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102196 c.846delC frameshift_variant 0.14
katG 2154919 p.Leu398Pro missense_variant 0.11
PPE35 2170478 p.Phe45Leu missense_variant 0.15
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2714824 p.Glu170Val missense_variant 0.11
eis 2715038 p.Ala99Thr missense_variant 1.0
Rv2752c 3064653 c.1539A>C synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474098 c.94delC frameshift_variant 0.11
fprA 3474868 p.Val288Leu missense_variant 0.13
whiB7 3568808 c.-129C>T upstream_gene_variant 0.12
rpoA 3878363 p.Ala49Thr missense_variant 0.14
ddn 3986977 c.136delG frameshift_variant 0.11
clpC1 4040549 c.156G>A synonymous_variant 0.17
embC 4241683 c.1821G>A synonymous_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4245082 p.Ala617Gly missense_variant 0.15
ethR 4327312 c.-237G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0