TB-Profiler result

Run: ERR4819950
Summary

Run ID: ERR4819950

Sample name:

Date: 01-04-2023 16:24:01

Number of reads: 1818035

Percentage reads mapped: 99.25

Strain: lineage4.1.1.3

Drug-resistance: RR-TB

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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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
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
gyrB 6026 p.His263Asp missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_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
fbiC 1304674 p.Gly582Arg missense_variant 1.0
fbiC 1304855 p.Val642Ala missense_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.2
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.2
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.12
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.11
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.1
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.11
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.17
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.12
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.13
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.11
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.1
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.1
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.12
rrl 1474171 n.514C>A non_coding_transcript_exon_variant 0.14
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.19
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.21
rrl 1475752 n.2095C>T non_coding_transcript_exon_variant 0.21
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.21
rrl 1475758 n.2101A>G non_coding_transcript_exon_variant 0.23
rrl 1475760 n.2103C>T non_coding_transcript_exon_variant 0.23
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.23
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.23
rrl 1475764 n.2107A>T non_coding_transcript_exon_variant 0.23
rrl 1475765 n.2108A>T non_coding_transcript_exon_variant 0.23
rrl 1475769 n.2112T>C non_coding_transcript_exon_variant 0.25
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.27
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.17
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.15
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.15
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.14
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.14
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.14
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.15
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.11
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.14
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.1
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.12
rpsA 1833552 p.Pro4Leu missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155707 p.Trp135* stop_gained 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087921 p.Ser368Gly missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474115 p.Asp37Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
embB 4249678 c.3165C>A synonymous_variant 1.0
ethA 4327028 p.Pro149Gln missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0