TB-Profiler result

Run: ERR245772
Summary

Run ID: ERR245772

Sample name:

Date: 31-03-2023 18:20:28

Number of reads: 12738741

Percentage reads mapped: 83.88

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
rpoB 762249 p.Leu815Val missense_variant 0.19
rpoC 762836 c.-534C>G upstream_gene_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1461019 c.-26C>A upstream_gene_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.11
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.12
rrs 1472338 n.493A>C non_coding_transcript_exon_variant 0.11
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.13
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.11
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.13
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.13
rrs 1472719 n.874G>A non_coding_transcript_exon_variant 0.14
rrs 1472733 n.888G>T non_coding_transcript_exon_variant 0.18
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.18
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.17
rrs 1472742 n.897C>A non_coding_transcript_exon_variant 0.17
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.18
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.21
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.15
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.12
rrs 1473343 n.1498G>T non_coding_transcript_exon_variant 0.21
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.22
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.21
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.13
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.11
rrl 1476427 n.2770G>T non_coding_transcript_exon_variant 0.11
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.11
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102891 p.Phe51Ser missense_variant 0.21
PPE35 2169866 c.747G>C synonymous_variant 0.38
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 0.33
eis 2715586 c.-254G>C upstream_gene_variant 0.53
pepQ 2859381 c.1038C>G synonymous_variant 0.25
Rv2752c 3064552 p.Arg547Pro missense_variant 0.18
Rv2752c 3064741 p.Gly484Ala missense_variant 0.23
Rv2752c 3067191 c.-1000G>A upstream_gene_variant 1.0
thyX 3067995 c.-50A>C upstream_gene_variant 0.19
thyA 3073817 p.Gln219Glu missense_variant 0.3
fbiD 3339385 p.Asp90Asn missense_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.24
fbiB 3642734 c.1200G>C synonymous_variant 0.18
rpoA 3878238 p.Asp90Glu missense_variant 0.18
clpC1 4038857 c.1848C>A synonymous_variant 0.2
clpC1 4039932 p.Gly258Val missense_variant 0.32
embC 4239842 c.-21C>A upstream_gene_variant 0.16
embC 4241128 c.1266G>C synonymous_variant 0.2
embC 4242476 p.Pro872Ala missense_variant 0.24
embC 4242822 p.Val987Gly missense_variant 0.35
embA 4244375 c.1143C>G synonymous_variant 0.23
ubiA 4269529 p.Ala102Gly missense_variant 0.2
ethA 4327672 c.-199G>A upstream_gene_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0