TB-Profiler result

Run: ERR4815010
Summary

Run ID: ERR4815010

Sample name:

Date: 01-04-2023 13:37:14

Number of reads: 2137027

Percentage reads mapped: 96.51

Strain: lineage4.1.2.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.1.2 Euro-American T;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 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
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575679 p.Asn111Ser missense_variant 0.98
rpoB 760115 c.309C>T synonymous_variant 0.97
rpoB 760223 c.417T>C synonymous_variant 0.11
rpoB 760235 c.429T>C synonymous_variant 0.11
rpoB 760830 c.1024T>C synonymous_variant 0.12
rpoB 760845 p.Thr347Pro missense_variant 0.12
rpoB 760859 c.1053T>C synonymous_variant 0.14
rpoB 760869 p.Val355Ile missense_variant 0.17
rpoB 761189 c.1383T>G synonymous_variant 0.12
rpoC 763945 c.576T>C synonymous_variant 0.14
rpoC 763960 c.591T>C synonymous_variant 0.11
rpoC 763967 p.Gly200Ser missense_variant 0.11
rpoC 763978 c.609C>G synonymous_variant 0.12
rpoC 764911 c.1542A>G synonymous_variant 0.12
rpoC 764923 c.1554A>G synonymous_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765700 c.2331T>C synonymous_variant 0.11
rpoC 765967 c.2598C>T synonymous_variant 0.12
rpoC 765985 c.2616C>T synonymous_variant 0.11
rpoC 765994 c.2625A>T synonymous_variant 0.12
rpoC 766651 c.3282T>C synonymous_variant 0.11
rpoC 766657 c.3288A>G synonymous_variant 0.12
rpoC 766672 c.3303T>C synonymous_variant 0.13
rpoC 766900 c.3531T>C synonymous_variant 0.11
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 1471923 n.78T>C non_coding_transcript_exon_variant 0.23
rrs 1471934 n.89A>G non_coding_transcript_exon_variant 0.23
rrs 1471969 n.124T>C non_coding_transcript_exon_variant 0.25
rrs 1471970 n.125G>A non_coding_transcript_exon_variant 0.25
rrs 1472028 n.183A>T non_coding_transcript_exon_variant 0.6
rrs 1472030 n.185G>A non_coding_transcript_exon_variant 0.6
rrs 1472031 n.186G>A non_coding_transcript_exon_variant 0.6
rrs 1472034 n.189T>C non_coding_transcript_exon_variant 0.75
rrs 1472044 n.199G>C non_coding_transcript_exon_variant 0.75
rrs 1472053 n.211_212delGC non_coding_transcript_exon_variant 0.75
rrs 1472061 n.216A>T non_coding_transcript_exon_variant 0.75
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.83
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.67
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.5
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.67
rrl 1474104 n.447G>A non_coding_transcript_exon_variant 0.67
rrl 1474111 n.454T>C non_coding_transcript_exon_variant 0.67
rrl 1474112 n.455T>A non_coding_transcript_exon_variant 0.67
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 0.67
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.67
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.43
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.43
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ahpC 2726554 p.Ala121Gly missense_variant 0.11
thyA 3073953 c.519T>C synonymous_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877839 c.669G>C synonymous_variant 0.13
clpC1 4038498 p.Ser736Asn missense_variant 1.0
clpC1 4038623 c.2082A>G synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 0.99
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0