TB-Profiler result

Run: ERR4817248
Summary

Run ID: ERR4817248

Sample name:

Date: 01-04-2023 14:53:09

Number of reads: 1562707

Percentage reads mapped: 93.96

Strain: lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.2 Euro-American T;LAM RD726 1.0
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 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 0.22 streptomycin
gid 4407851 c.351delG frameshift_variant 1.0 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
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.29
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.43
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.43
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.43
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.5
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.6
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.6
rrs 1472592 n.747C>T non_coding_transcript_exon_variant 0.5
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.5
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.5
rrs 1472606 n.761C>T non_coding_transcript_exon_variant 0.43
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.43
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.38
rrs 1472645 n.800G>A non_coding_transcript_exon_variant 0.45
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.4
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.44
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.44
rrs 1472666 n.821G>A non_coding_transcript_exon_variant 0.29
rrs 1472669 n.824_825insTTGA non_coding_transcript_exon_variant 0.29
rrs 1472678 n.833T>G non_coding_transcript_exon_variant 0.29
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.25
rrs 1472682 n.839_843delGGGAT non_coding_transcript_exon_variant 0.25
rrs 1472689 n.844C>A non_coding_transcript_exon_variant 0.2
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.2
rrs 1472694 n.849C>T non_coding_transcript_exon_variant 0.17
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.27
rrs 1472708 n.863T>C non_coding_transcript_exon_variant 0.12
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.24
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.24
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.24
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.24
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.25
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.25
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.25
rrs 1472956 n.1111T>A non_coding_transcript_exon_variant 0.25
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.25
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.2
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.22
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.22
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.22
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.22
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.25
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.2
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.2
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.2
rrs 1472990 n.1145A>T non_coding_transcript_exon_variant 0.2
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.25
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.25
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.25
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.25
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.22
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3067474 p.Pro158Ala missense_variant 1.0
ald 3086759 c.-61A>G upstream_gene_variant 1.0
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612571 c.546C>T synonymous_variant 1.0
embA 4242550 c.-683C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267272 p.Lys522Arg missense_variant 1.0
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0