TB-Profiler result

Run: ERR4819138
Summary

Run ID: ERR4819138

Sample name:

Date: 01-04-2023 15:56:32

Number of reads: 743171

Percentage reads mapped: 97.8

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
gyrA 9569 c.2268C>T synonymous_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575423 p.Arg26Cys 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 0.97
rpoC 766737 p.Arg1123Gln missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777164 c.1317C>T synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407006 p.Leu112Arg missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.67
rrs 1472674 n.829T>C non_coding_transcript_exon_variant 0.67
rrs 1472675 n.830T>G non_coding_transcript_exon_variant 0.67
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.67
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 1.0
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 1.0
rrs 1472685 n.840G>T non_coding_transcript_exon_variant 1.0
rrs 1472701 n.856T>C non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.6
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.67
fabG1 1673560 p.Lys41Gln missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167865 c.2748G>C synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518348 c.234A>T synonymous_variant 0.14
ahpC 2726341 p.Val50Gly missense_variant 0.38
ahpC 2726350 p.Trp53Leu missense_variant 0.21
folC 2746534 p.Asn355Lys missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449568 c.1065G>T synonymous_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475176 c.1170G>A synonymous_variant 0.12
fprA 3475343 p.Ser446Asn missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4242871 c.-362C>T upstream_gene_variant 0.11
embA 4244296 p.Ala355Val missense_variant 0.17
embA 4244741 p.Tyr503* stop_gained 0.12
embB 4246157 c.-357A>G upstream_gene_variant 0.11
embB 4248888 p.Gly792Ala missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0