TB-Profiler result

Run: ERR1750898
Summary

Run ID: ERR1750898

Sample name:

Date: 31-03-2023 14:58:46

Number of reads: 5806114

Percentage reads mapped: 97.79

Strain: lineage4.1.1.3

Drug-resistance: Sensitive

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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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
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
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
rpsL 781435 c.-125G>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.29
rrs 1472354 n.509C>G non_coding_transcript_exon_variant 0.13
rrs 1472383 n.538A>G non_coding_transcript_exon_variant 0.11
rrs 1472479 n.634C>T non_coding_transcript_exon_variant 0.15
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.13
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.11
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.1
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.17
rrl 1474601 n.944C>T non_coding_transcript_exon_variant 0.17
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.15
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.17
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.17
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.17
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.17
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.14
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.15
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.11
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.11
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.11
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.12
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.11
rrl 1476302 n.2645G>C non_coding_transcript_exon_variant 0.12
rrl 1476304 n.2647G>C non_coding_transcript_exon_variant 0.12
rrl 1476305 n.2649_2650delAA non_coding_transcript_exon_variant 0.12
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.11
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.29
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.15
rrl 1476506 n.2849T>C 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
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407798 c.405G>T synonymous_variant 1.0