TB-Profiler result

Run: ERR1198990
Summary

Run ID: ERR1198990

Sample name:

Date: 14-08-2022 01:42:00

Number of reads: 10798086

Percentage reads mapped: 95.66

Strain: lineage4.6.1.1

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.1 Euro-American (Uganda) T2 RD724 1.0
lineage4.6.1.1 Euro-American T2-Uganda RD724 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 1472644 n.799C>T non_coding_transcript_exon_variant 0.14 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 7539 p.Thr80Ala 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
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 0.19
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.21
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.18
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.14
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.23
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.13
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.12
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.2
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.12
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.09
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.14
rrl 1473870 n.213G>A non_coding_transcript_exon_variant 0.13
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.13
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.16
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.1
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.13
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.12
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.22
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.21
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.12
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.17
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.17
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.16
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.13
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.19
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.17
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.17
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.15
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.18
PPE35 2169866 c.747G>C synonymous_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987307 p.Ala157Pro missense_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.14
embC 4242425 p.Arg855Gly missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328329 c.-856C>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0