TB-Profiler result

Run: ERR046996
Summary

Run ID: ERR046996

Sample name:

Date: 31-03-2023 09:00:34

Number of reads: 7137983

Percentage reads mapped: 99.6

Strain: lineage4.6.2.2

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
lineage4.6 Euro-American T;LAM None 0.99
lineage4.6.2 Euro-American T;LAM RD726 0.99
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.99
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 0.27
rpoC 764725 p.Phe452Leu missense_variant 0.26
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776186 p.Phe765Leu missense_variant 0.99
mmpL5 777399 p.Thr361Arg missense_variant 0.25
mmpR5 778298 c.-692C>T upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.31
inhA 1674892 p.Asn231Asp missense_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169866 c.747G>C synonymous_variant 0.45
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.91
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.24
Rv2752c 3064741 p.Gly484Ala missense_variant 0.33
Rv2752c 3065258 p.Met312Val missense_variant 0.99
thyX 3067474 p.Pro158Ala missense_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.18
fbiD 3339273 c.156T>G synonymous_variant 0.22
fbiD 3339335 p.Ala73Gly missense_variant 0.23
Rv3083 3448567 p.His22Asp missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475280 p.Val425Gly missense_variant 0.41
Rv3236c 3612571 c.546C>T synonymous_variant 0.99
fbiB 3641955 p.Gly141Arg missense_variant 0.21
fbiB 3642734 c.1200G>C synonymous_variant 0.23
fbiB 3642772 p.Asp413Ala missense_variant 0.17
rpoA 3878238 p.Asp90Glu missense_variant 0.21
ddn 3987013 p.Gly57Ala missense_variant 0.26
clpC1 4038857 c.1848C>A synonymous_variant 0.25
clpC1 4039932 p.Gly258Val missense_variant 0.28
embC 4239842 c.-21C>A upstream_gene_variant 0.12
embC 4242476 p.Pro872Ala missense_variant 0.24
embA 4242550 c.-683C>G upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.33
embC 4242827 p.Leu989Val missense_variant 0.2
aftB 4267272 p.Lys522Arg missense_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.19
ethR 4326739 c.-810G>C upstream_gene_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.2
ethA 4328004 c.-531C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0