TB-Profiler result

Run: ERR046910
Summary

Run ID: ERR046910

Sample name:

Date: 31-03-2023 08:56:51

Number of reads: 3443254

Percentage reads mapped: 99.43

Strain: lineage4.1.1.3.1

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 0.99
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 1.0
lineage4.1.1.3.1 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 9304 p.Gly668Asp missense_variant 1.0
fgd1 491027 p.Asn82Thr missense_variant 0.25
ccsA 620748 c.858T>G synonymous_variant 0.22
rpoC 762836 c.-534C>G upstream_gene_variant 0.21
rpoC 764725 p.Phe452Leu missense_variant 0.25
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 767305 p.Tyr1312* stop_gained 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.19
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800997 p.Asn63Lys missense_variant 0.16
fbiC 1303016 p.Val29Gly missense_variant 0.16
fbiC 1303601 p.Glu224Gly missense_variant 1.0
Rv1258c 1406750 c.591C>A synonymous_variant 0.18
embR 1417233 c.115C>T synonymous_variant 0.21
atpE 1461019 c.-26C>A upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.19
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.18
rrl 1476408 n.2751G>C non_coding_transcript_exon_variant 0.17
inhA 1674892 p.Asn231Asp missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.23
PPE35 2169866 c.747G>C synonymous_variant 0.29
PPE35 2170156 p.Ala153Pro missense_variant 0.27
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518891 c.777C>A synonymous_variant 0.17
eis 2714366 p.Val323Leu missense_variant 0.15
eis 2715586 c.-254G>C upstream_gene_variant 0.38
ahpC 2726550 p.Gln120Lys missense_variant 0.17
ahpC 2726737 p.Asp182Ala missense_variant 0.17
folC 2746186 c.1413G>C synonymous_variant 0.28
Rv2752c 3064741 p.Gly484Ala missense_variant 0.24
Rv2752c 3065618 p.Gly192Arg missense_variant 0.21
thyX 3067995 c.-50A>C upstream_gene_variant 0.23
thyA 3073806 c.666C>G synonymous_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 0.98
fbiD 3339335 p.Ala73Gly missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.43
fbiB 3642734 c.1200G>C synonymous_variant 0.22
rpoA 3878641 c.-135delG upstream_gene_variant 0.14
ddn 3987013 p.Gly57Ala missense_variant 0.2
clpC1 4038857 c.1848C>A synonymous_variant 0.2
clpC1 4039363 p.Ala448Pro missense_variant 0.17
clpC1 4039932 p.Gly258Val missense_variant 0.23
embC 4241456 p.Ala532Pro missense_variant 0.35
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embC 4242822 p.Val987Gly missense_variant 0.14
embA 4243977 p.Ala249Pro missense_variant 0.24
embB 4249408 c.2895G>A synonymous_variant 1.0
ubiA 4269529 p.Ala102Gly missense_variant 0.32
aftB 4269540 c.-704C>T upstream_gene_variant 1.0
ethA 4327672 c.-199G>A upstream_gene_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0