TB-Profiler result

Run: ERR3994108
Summary

Run ID: ERR3994108

Sample name:

Date: 01-04-2023 03:42:31

Number of reads: 3036167

Percentage reads mapped: 99.96

Strain: lineage4.1

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 0.97
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
gyrB 5186 c.-54C>A upstream_gene_variant 0.13
gyrB 6329 p.Glu364Lys missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8831 c.1530G>A synonymous_variant 0.12
gyrA 8838 p.Arg513Cys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 762802 p.Asp999Gly missense_variant 0.15
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775869 p.Ile871Thr missense_variant 0.11
mmpL5 775904 c.2576delA frameshift_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800817 c.9A>C synonymous_variant 0.96
atpE 1461086 c.42A>G synonymous_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473526 n.-132A>G upstream_gene_variant 0.17
rrl 1473972 n.315G>A non_coding_transcript_exon_variant 0.12
rrl 1476083 n.2429dupG non_coding_transcript_exon_variant 0.22
rrl 1476758 n.3101G>A non_coding_transcript_exon_variant 0.2
fabG1 1673317 c.-123T>C upstream_gene_variant 0.12
rpsA 1834348 c.807T>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155255 p.Pro286Leu missense_variant 0.2
PPE35 2168463 p.Pro717Leu missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518810 p.Lys232Asn missense_variant 0.12
folC 2746829 p.Ala257Val missense_variant 0.18
pepQ 2860237 p.Arg61His missense_variant 0.12
thyX 3067968 c.-23C>T upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.93
Rv3236c 3612103 c.1014G>A synonymous_variant 0.15
Rv3236c 3612148 p.Gln323His missense_variant 0.14
Rv3236c 3612515 p.Arg201His missense_variant 1.0
clpC1 4038185 c.2520G>A synonymous_variant 0.18
embC 4242375 p.Arg838Gln missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242848 p.Pro996Ser missense_variant 0.2
embA 4243525 p.Val98Ala missense_variant 0.18
embA 4243742 c.510T>C synonymous_variant 0.1
embA 4244378 p.Glu382Asp missense_variant 0.18
embA 4245289 p.Ala686Val missense_variant 0.12
embB 4245944 c.-570C>A upstream_gene_variant 0.13
embB 4246852 c.339G>T synonymous_variant 0.14
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4267586 c.1251C>T synonymous_variant 0.14
aftB 4267645 p.Asp398Asn missense_variant 0.15
aftB 4267699 c.1138C>T synonymous_variant 0.12
ubiA 4270016 c.-183G>A upstream_gene_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408031 p.Leu58Phe missense_variant 1.0