TB-Profiler result

Run: ERR245714
Summary

Run ID: ERR245714

Sample name:

Date: 31-03-2023 18:16:31

Number of reads: 12175902

Percentage reads mapped: 99.68

Strain: lineage4.9.1

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
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
lineage4.9.1 Euro-American (H37Rv-like) T1 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 7493 c.192C>T synonymous_variant 0.23
gyrA 8978 c.1677C>T synonymous_variant 1.0
mshA 575309 c.-39C>G upstream_gene_variant 0.2
mshA 576751 p.Lys468Asn missense_variant 0.22
rpoC 762836 c.-534C>G upstream_gene_variant 0.25
rpoC 764725 p.Phe452Leu missense_variant 0.16
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1407522 c.-182C>G upstream_gene_variant 0.24
embR 1417136 p.Ser71Ile missense_variant 0.2
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 0.2
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.22
rrl 1476408 n.2751G>C non_coding_transcript_exon_variant 0.19
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918069 p.Thr44Pro missense_variant 0.28
PPE35 2167871 c.2742G>C synonymous_variant 0.15
PPE35 2169866 c.747G>C synonymous_variant 0.39
Rv1979c 2223145 p.Arg7Lys missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
kasA 2518891 c.777C>A synonymous_variant 0.21
eis 2714366 p.Val323Leu missense_variant 0.2
eis 2715586 c.-254G>C upstream_gene_variant 0.3
ahpC 2725954 c.-239C>T upstream_gene_variant 0.22
folC 2746186 c.1413G>C synonymous_variant 0.29
pepQ 2859680 p.Leu247Val missense_variant 0.22
pepQ 2859974 p.Ala149Pro missense_variant 0.21
Rv2752c 3064741 p.Gly484Ala missense_variant 0.24
Rv2752c 3065618 p.Gly192Arg missense_variant 0.22
Rv2752c 3067191 c.-1000G>A upstream_gene_variant 1.0
thyX 3067965 c.-20C>G upstream_gene_variant 0.22
thyA 3073817 p.Gln219Glu missense_variant 0.22
fbiD 3339385 p.Asp90Asn missense_variant 1.0
Rv3083 3449058 p.Ser185Arg missense_variant 0.17
Rv3083 3449673 p.Tyr390* stop_gained 0.21
Rv3236c 3611982 p.Ala379Pro missense_variant 0.34
fbiB 3641955 p.Gly141Arg missense_variant 0.2
clpC1 4039932 p.Gly258Val missense_variant 0.29
embC 4239870 p.Thr3Asn missense_variant 0.17
embC 4241056 c.1194C>G synonymous_variant 0.22
embC 4242476 p.Pro872Ala missense_variant 0.18
embC 4242822 p.Val987Gly missense_variant 0.29
embA 4244375 c.1143C>G synonymous_variant 0.2
embB 4247041 c.528C>T synonymous_variant 0.2
embB 4249618 c.3105C>G synonymous_variant 0.18
ubiA 4269529 p.Ala102Gly missense_variant 0.23
ethA 4327672 c.-199G>A upstream_gene_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0