TB-Profiler result

Run: ERR037517
Summary

Run ID: ERR037517

Sample name:

Date: 31-03-2023 08:35:42

Number of reads: 13048384

Percentage reads mapped: 96.2

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 8978 c.1677C>T synonymous_variant 1.0
rpoC 762836 c.-534C>G upstream_gene_variant 0.3
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777399 p.Thr361Arg missense_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 0.99
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.12
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.13
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.13
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.18
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.2
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.1
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.11
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.1
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.11
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.19
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.15
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.16
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.17
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.18
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.18
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.25
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.14
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.19
PPE35 2169866 c.747G>C synonymous_variant 0.37
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
pncA 2289448 c.-207G>A upstream_gene_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.19
eis 2715586 c.-254G>C upstream_gene_variant 0.39
pepQ 2859381 c.1038C>G synonymous_variant 0.25
ribD 2987307 p.Ala157Pro missense_variant 0.17
Rv2752c 3064552 p.Arg547Pro missense_variant 0.2
Rv2752c 3064741 p.Gly484Ala missense_variant 0.31
Rv2752c 3067191 c.-1000G>A upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.21
fbiD 3339385 p.Asp90Asn missense_variant 1.0
fbiD 3339550 p.Gly145Trp missense_variant 0.23
fbiB 3641955 p.Gly141Arg missense_variant 0.24
fbiB 3642734 c.1200G>C synonymous_variant 0.24
clpC1 4038857 c.1848C>A synonymous_variant 0.19
clpC1 4039932 p.Gly258Val missense_variant 0.3
embC 4239842 c.-21C>A upstream_gene_variant 0.16
embC 4241456 p.Ala532Pro missense_variant 0.41
embC 4242425 p.Arg855Gly missense_variant 0.22
embC 4242476 p.Pro872Ala missense_variant 0.25
embC 4242822 p.Val987Gly missense_variant 0.39
ubiA 4269529 p.Ala102Gly missense_variant 0.21
ethA 4327672 c.-199G>A upstream_gene_variant 0.31
whiB6 4338595 c.-75delG upstream_gene_variant 1.0