TB-Profiler result

Run: ERR046733
Summary

Run ID: ERR046733

Sample name:

Date: 31-03-2023 08:48:49

Number of reads: 7145985

Percentage reads mapped: 99.39

Strain: lineage4.1.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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 0.99
mshA 575309 c.-39C>G upstream_gene_variant 0.15
rpoC 762836 c.-534C>G upstream_gene_variant 0.29
rpoC 764725 p.Phe452Leu missense_variant 0.27
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.13
mmpR5 779371 p.Ala128Pro missense_variant 0.19
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169379 p.Phe412Val missense_variant 0.21
PPE35 2169866 c.747G>C synonymous_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.33
folC 2746186 c.1413G>C synonymous_variant 0.22
pepQ 2859381 c.1038C>G synonymous_variant 0.27
Rv2752c 3064552 p.Arg547Pro missense_variant 0.18
thyX 3067995 c.-50A>C upstream_gene_variant 0.18
thyA 3073806 c.666C>G synonymous_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.24
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.27
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.27
alr 3840268 p.Thr385Pro missense_variant 0.21
rpoA 3877553 p.Glu319Lys missense_variant 1.0
rpoA 3878559 c.-53_-52insC upstream_gene_variant 0.42
rpoA 3878601 c.-95delG upstream_gene_variant 0.69
rpoA 3878613 c.-113_-107delCAACCCA upstream_gene_variant 1.0
rpoA 3878641 c.-135delG upstream_gene_variant 0.11
ddn 3987013 p.Gly57Ala missense_variant 0.26
clpC1 4038857 c.1848C>A synonymous_variant 0.18
clpC1 4039363 p.Ala448Pro missense_variant 0.28
clpC1 4039932 p.Gly258Val missense_variant 0.28
embC 4240897 c.1035C>G synonymous_variant 1.0
embC 4242476 p.Pro872Ala missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.32
embB 4249408 c.2895G>A synonymous_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.14
ethA 4327672 c.-199G>A upstream_gene_variant 0.32
ethR 4327912 p.Arg122Gly missense_variant 0.23
whiB6 4338595 c.-75delG upstream_gene_variant 1.0