TB-Profiler result

Run: ERR1367680
Summary

Run ID: ERR1367680

Sample name:

Date: 31-03-2023 13:56:33

Number of reads: 11912710

Percentage reads mapped: 99.64

Strain: lineage4.4.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans 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 9304 p.Gly668Asp missense_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.61
rpoC 764725 p.Phe452Leu missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.17
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.2
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.16
fabG1 1673449 p.Thr4Pro missense_variant 0.35
inhA 1674952 p.Pro251Ala missense_variant 0.16
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.12
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.16
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ribD 2987307 p.Ala157Pro missense_variant 0.23
Rv2752c 3064552 p.Arg547Pro missense_variant 0.27
Rv2752c 3064741 p.Gly484Ala missense_variant 0.12
thyX 3067995 c.-50A>C upstream_gene_variant 0.26
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339153 p.Leu12Phe missense_variant 0.19
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.35
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
alr 3840268 p.Thr385Pro missense_variant 0.18
rpoA 3878238 p.Asp90Glu missense_variant 0.12
clpC1 4039363 p.Ala448Pro missense_variant 0.2
clpC1 4039932 p.Gly258Val missense_variant 0.21
embC 4239842 c.-21C>A upstream_gene_variant 0.22
embA 4242643 c.-590C>T upstream_gene_variant 0.99
embC 4242822 p.Val987Gly missense_variant 0.36
embB 4246904 p.Val131Met missense_variant 0.99
embB 4247017 c.504G>A synonymous_variant 1.0
ethA 4327815 c.-342G>C upstream_gene_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0