TB-Profiler result

Run: ERR1750932
Summary

Run ID: ERR1750932

Sample name:

Date: 31-03-2023 15:00:35

Number of reads: 3866676

Percentage reads mapped: 97.77

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 0.99
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 1.0
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778067 c.413delG frameshift_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.16
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.17
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.17
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.2
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.12
rrs 1472994 n.1149A>G non_coding_transcript_exon_variant 0.25
rrs 1472999 n.1154C>A non_coding_transcript_exon_variant 0.25
rrs 1473017 n.1172A>G non_coding_transcript_exon_variant 0.25
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.17
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.17
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.13
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.23
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.25
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.31
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.31
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.31
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.31
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.25
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.17
rrs 1473185 n.1340T>C non_coding_transcript_exon_variant 0.14
rrl 1474865 n.1208C>A non_coding_transcript_exon_variant 0.4
rrl 1474941 n.1284G>T non_coding_transcript_exon_variant 0.67
rrl 1475437 n.1780G>T non_coding_transcript_exon_variant 0.29
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.18
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.2
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.22
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.22
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.22
rrl 1476335 n.2678C>T non_coding_transcript_exon_variant 0.29
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.17
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.17
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.18
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.18
fabG1 1673264 c.-176A>C upstream_gene_variant 1.0
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
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
whiB6 4338595 c.-75delG upstream_gene_variant 1.0