TB-Profiler result

Run: ERR5908131
Summary

Run ID: ERR5908131

Sample name:

Date: 02-04-2023 00:50:37

Number of reads: 1156035

Percentage reads mapped: 99.61

Strain: lineage4.1.1.2

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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.2 Euro-American (X-type) X1 None 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 8258 c.957G>A synonymous_variant 0.2
gyrA 8360 c.1059G>A synonymous_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.28
rpoB 759659 c.-148T>G upstream_gene_variant 0.17
rpoB 761402 c.1596C>A synonymous_variant 0.14
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 1302814 c.-117C>T upstream_gene_variant 1.0
embR 1416225 p.Glu375Lys missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471921 n.76G>A non_coding_transcript_exon_variant 0.13
rrs 1472125 n.280G>T non_coding_transcript_exon_variant 0.18
rrs 1472580 n.735C>A non_coding_transcript_exon_variant 0.25
rrs 1472846 n.1001C>A non_coding_transcript_exon_variant 0.13
rrs 1472849 n.1004C>A non_coding_transcript_exon_variant 0.13
rrs 1472941 n.1096A>T non_coding_transcript_exon_variant 0.17
rrs 1473211 n.1366G>T non_coding_transcript_exon_variant 0.2
rrl 1474199 n.542G>A non_coding_transcript_exon_variant 0.22
rrl 1474829 n.1172C>A non_coding_transcript_exon_variant 0.12
rrl 1475213 n.1556C>A non_coding_transcript_exon_variant 0.22
rrl 1475487 n.1830C>T non_coding_transcript_exon_variant 0.25
rrl 1475623 n.1966C>A non_coding_transcript_exon_variant 0.18
rrl 1476427 n.2770G>T non_coding_transcript_exon_variant 0.17
rrl 1476604 n.2947G>A non_coding_transcript_exon_variant 0.12
fabG1 1673482 p.Ser15Pro missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167698 p.Asn972Thr missense_variant 0.1
PPE35 2168301 p.Thr771Asn missense_variant 0.12
PPE35 2168795 c.1818G>A synonymous_variant 0.14
PPE35 2169366 p.Ser416Asn missense_variant 0.15
Rv1979c 2222841 c.324G>T synonymous_variant 0.12
Rv1979c 2223000 c.165C>A synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448456 c.-48G>T upstream_gene_variant 0.12
Rv3083 3449787 c.1284C>T synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841477 c.-57G>T upstream_gene_variant 0.16
rpoA 3878455 p.Arg18Leu missense_variant 0.17
rpoA 3878630 c.-123G>C upstream_gene_variant 0.15
embC 4241572 c.1710C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243833 p.Ala201Thr missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.32
embB 4246930 p.Gln139His missense_variant 1.0
embB 4248301 c.1791delG frameshift_variant 0.11
embB 4249408 c.2895G>A synonymous_variant 1.0
ethR 4327243 c.-306G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0