TB-Profiler result

Run: ERR2512704
Summary

Run ID: ERR2512704

Sample name:

Date: 31-03-2023 19:12:10

Number of reads: 1840837

Percentage reads mapped: 98.21

Strain: lineage4.3.2

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.2 Euro-American (LAM) LAM3 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 0.15 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
gyrB 5197 c.-43A>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr 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 1472106 n.261G>A non_coding_transcript_exon_variant 0.11
rrs 1472108 n.263C>A non_coding_transcript_exon_variant 0.11
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.12
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.13
rrs 1472130 n.285G>A non_coding_transcript_exon_variant 0.13
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.12
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.19
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.12
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.15
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.17
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.18
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 0.4
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.4
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.4
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.4
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.4
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.4
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.4
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.4
rrs 1472575 n.730C>T non_coding_transcript_exon_variant 0.4
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.4
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.4
rrs 1472591 n.746G>A non_coding_transcript_exon_variant 0.4
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.4
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.57
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.43
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.33
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.25
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.25
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.25
rrs 1472674 n.829T>C non_coding_transcript_exon_variant 0.25
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.25
rrs 1472683 n.838T>A non_coding_transcript_exon_variant 0.25
rrs 1472685 n.840G>A non_coding_transcript_exon_variant 0.25
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.22
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.2
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.2
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.14
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.17
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.14
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.29
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.2
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.15
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.18
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 1473276 n.1431A>C non_coding_transcript_exon_variant 0.11
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.11
rrs 1473288 n.1443C>G non_coding_transcript_exon_variant 0.1
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.1
rrs 1473294 n.1449A>G non_coding_transcript_exon_variant 0.1
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.11
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.11
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.11
rrl 1473737 n.80G>A non_coding_transcript_exon_variant 0.22
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.11
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.11
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.12
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_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
whiB7 3568496 p.Pro62Ser missense_variant 1.0
Rv3236c 3612344 p.Arg258Gln missense_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0