TB-Profiler result

Run: ERR4820853
Summary

Run ID: ERR4820853

Sample name:

Date: 01-04-2023 16:55:10

Number of reads: 1571394

Percentage reads mapped: 98.85

Strain: lineage4.1.2.1

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
lineage4.1.2 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 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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.12
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.12
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.12
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.36
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.2
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.22
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.22
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.2
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.18
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.2
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.18
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.25
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.29
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.14
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 0.23
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.2
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.14
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.13
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.17
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.17
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.18
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.14
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.11
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.15
rrs 1473371 n.1526C>A non_coding_transcript_exon_variant 0.18
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.14
PPE35 2170053 p.Thr187Ser missense_variant 0.14
PPE35 2170066 p.Ala183Thr missense_variant 0.17
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