TB-Profiler result

Run: ERR4407493
Summary

Run ID: ERR4407493

Sample name:

Date: 01-04-2023 05:46:28

Number of reads: 666329

Percentage reads mapped: 99.32

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 6793 c.-509T>C upstream_gene_variant 0.13
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 764788 c.1419G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765499 c.2130C>G synonymous_variant 0.1
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 1471824 n.-22T>C upstream_gene_variant 0.11
rrl 1475122 n.1465C>T non_coding_transcript_exon_variant 0.22
rrl 1475268 n.1613_1615delGAG non_coding_transcript_exon_variant 0.13
rrl 1475490 n.1833C>T non_coding_transcript_exon_variant 0.1
rrl 1476431 n.2775delT non_coding_transcript_exon_variant 0.12
fabG1 1674101 p.Val221Asp missense_variant 0.11
inhA 1674673 p.Tyr158His missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167745 p.Thr956Arg missense_variant 0.12
PPE35 2168676 p.Leu646Pro missense_variant 0.17
PPE35 2169173 p.Ile480Met missense_variant 0.17
PPE35 2170066 p.Ala183Thr missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518888 c.774C>T synonymous_variant 0.2
folC 2746707 p.Gln298Glu missense_variant 0.11
ribD 2987104 p.Arg89Leu missense_variant 0.15
Rv2752c 3066016 c.172_175delGATC frameshift_variant 0.1
thyA 3074648 c.-177T>G upstream_gene_variant 0.25
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448334 c.-170C>A upstream_gene_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642005 c.471C>A synonymous_variant 0.12
fbiB 3642516 p.Ala328Thr missense_variant 0.11
alr 3840705 p.Ala239Val missense_variant 0.11
rpoA 3878619 c.-113delC upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243935 p.Asp235Asn missense_variant 0.14
embA 4244070 c.839delT frameshift_variant 0.13
embA 4244194 p.Gly321Ala missense_variant 0.1
embA 4244439 p.Gly403Arg missense_variant 0.17
embA 4244552 c.1320C>T synonymous_variant 0.13
embA 4246303 p.Ser1024Asn missense_variant 0.12
embB 4249265 p.Pro918Thr missense_variant 0.14
embB 4249275 p.Leu921Pro missense_variant 0.18
embB 4249323 p.Ala937Glu missense_variant 0.27
aftB 4267659 p.Pro393Leu missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0