TB-Profiler result

Run: ERR2515985
Summary

Run ID: ERR2515985

Sample name:

Date: 31-03-2023 21:13:43

Number of reads: 657567

Percentage reads mapped: 99.65

Strain: lineage4.1.1.3

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
lineage4.1.1 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
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 7677 p.Ala126Thr missense_variant 0.11
gyrA 8085 p.Asp262Tyr missense_variant 0.14
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490909 p.Pro43Ser missense_variant 0.11
rpoC 763616 p.Thr83Ala missense_variant 0.12
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776031 p.Gly817Glu missense_variant 0.12
mmpL5 777104 c.1377G>A synonymous_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 0.97
rplC 801046 p.Tyr80His missense_variant 0.12
embR 1416710 p.Thr213Ser missense_variant 1.0
embR 1417271 p.Thr26Asn missense_variant 0.11
embR 1417380 c.-33C>T upstream_gene_variant 0.12
atpE 1460859 c.-186C>A upstream_gene_variant 0.12
atpE 1460927 c.-117delT upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471780 n.-66G>A upstream_gene_variant 0.11
rrl 1473817 n.160T>A non_coding_transcript_exon_variant 0.17
inhA 1674717 p.Asn172Lys missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102103 p.Tyr314His missense_variant 0.1
katG 2154168 c.1944G>A synonymous_variant 0.11
katG 2154248 p.Pro622Ser missense_variant 0.12
PPE35 2168689 p.Pro642Ala missense_variant 0.12
PPE35 2170804 c.-192C>T upstream_gene_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519065 c.953delG frameshift_variant 0.22
folC 2746409 p.Val397Ala missense_variant 0.14
folC 2746915 c.684G>T synonymous_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086939 c.120A>T synonymous_variant 0.14
fbiD 3339310 p.Asp65Asn missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474115 p.Asp37Asn missense_variant 1.0
fprA 3474220 p.Glu72Gln missense_variant 0.1
Rv3236c 3612182 p.Ala312Gly missense_variant 0.1
fbiA 3640484 c.-59T>A upstream_gene_variant 0.14
fbiA 3640642 c.101_103delACT disruptive_inframe_deletion 0.11
clpC1 4038916 p.Ala597Thr missense_variant 0.11
panD 4044441 c.-160T>A upstream_gene_variant 0.12
embC 4242185 p.Asp775Asn missense_variant 0.12
embC 4242272 p.Gly804Trp missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249120 p.Asp869Glu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
embB 4249678 c.3165C>A synonymous_variant 1.0
aftB 4267334 c.1503T>C synonymous_variant 0.14
aftB 4267736 c.1101C>T synonymous_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0