TB-Profiler result

Run: ERR1750901
Summary

Run ID: ERR1750901

Sample name:

Date: 31-03-2023 14:59:26

Number of reads: 1497154

Percentage reads mapped: 95.41

Strain: lineage4.7

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
lineage4.7 Euro-American (mainly T) T1;T5 None 0.99
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 8704 p.Ile468Thr missense_variant 0.12
rpoB 760325 c.519G>C synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776454 p.Met676Lys missense_variant 0.2
mmpL5 776783 p.Glu566Asp missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800643 c.-166C>G upstream_gene_variant 0.12
atpE 1460941 c.-104T>C upstream_gene_variant 0.15
atpE 1460943 c.-102C>T upstream_gene_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.17
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.21
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.12
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.12
rrs 1472742 n.898delT non_coding_transcript_exon_variant 0.14
rrl 1474294 n.637C>G non_coding_transcript_exon_variant 1.0
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.13
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.13
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.14
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 1.0
rrl 1475524 n.1867A>G non_coding_transcript_exon_variant 0.13
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.19
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
inhA 1674535 p.Pro112Ser missense_variant 0.15
inhA 1674988 p.Gly263Ser missense_variant 0.15
rpsA 1834139 p.Ser200Gly missense_variant 0.15
rpsA 1834571 p.Ala344Ser missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102737 c.306A>G synonymous_variant 0.11
ndh 2102805 p.Arg80Gly missense_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.12
Rv1979c 2222187 c.978T>A synonymous_variant 0.15
Rv1979c 2222245 p.Gly307Glu missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747118 p.Ala161Ser missense_variant 0.17
fbiD 3339182 p.Ala22Asp missense_variant 0.15
alr 3841302 p.Val40Ala missense_variant 0.12
rpoA 3877776 c.732T>C synonymous_variant 0.12
rpoA 3877782 c.726T>C synonymous_variant 0.11
rpoA 3877818 c.690A>G synonymous_variant 0.12
rpoA 3878694 c.-187A>T upstream_gene_variant 0.14
clpC1 4038907 p.Gly600Arg missense_variant 0.12
clpC1 4038923 c.1782A>G synonymous_variant 0.14
clpC1 4038941 c.1764G>C synonymous_variant 0.14
clpC1 4038953 c.1752A>G synonymous_variant 0.15
clpC1 4038956 c.1749T>C synonymous_variant 0.15
clpC1 4038965 c.1740T>C synonymous_variant 0.15
clpC1 4040324 c.381G>C synonymous_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245852 p.Ala874Thr missense_variant 0.15
embB 4247819 p.Val436Leu missense_variant 0.13
embB 4249732 c.3219C>G synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0