TB-Profiler result

Run: ERR245847
Summary

Run ID: ERR245847

Sample name:

Date: 31-03-2023 18:24:51

Number of reads: 10980871

Percentage reads mapped: 91.11

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 8445 p.Arg382Gly missense_variant 0.26
gyrA 8978 c.1677C>T synonymous_variant 1.0
ccsA 620407 p.Pro173Ala missense_variant 0.2
rpoB 759831 p.Thr9Pro missense_variant 0.27
rpoC 762836 c.-534C>G upstream_gene_variant 0.23
rpoC 764725 p.Phe452Leu missense_variant 0.22
rpoC 767305 p.Tyr1312* stop_gained 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 0.99
atpE 1461019 c.-26C>A upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.1
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.12
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.17
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.17
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.17
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.17
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.14
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.17
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.22
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.21
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.16
rrl 1474380 n.723G>T non_coding_transcript_exon_variant 0.23
rrl 1475363 n.1706C>A non_coding_transcript_exon_variant 0.2
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.14
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.15
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.18
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.19
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.19
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.38
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.31
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.31
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.17
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.1
fabG1 1673449 p.Thr4Pro missense_variant 0.36
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169379 p.Phe412Val missense_variant 0.25
PPE35 2169866 c.747G>C synonymous_variant 0.42
PPE35 2170156 p.Ala153Pro missense_variant 0.32
Rv1979c 2223145 p.Arg7Lys missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
eis 2714366 p.Val323Leu missense_variant 0.21
eis 2715586 c.-254G>C upstream_gene_variant 0.67
ahpC 2725954 c.-239C>T upstream_gene_variant 0.25
pepQ 2859381 c.1038C>G synonymous_variant 0.23
Rv2752c 3064741 p.Gly484Ala missense_variant 0.3
Rv2752c 3067191 c.-1000G>A upstream_gene_variant 0.99
thyX 3067995 c.-50A>C upstream_gene_variant 0.16
fbiD 3339385 p.Asp90Asn missense_variant 1.0
Rv3083 3449058 p.Ser185Arg missense_variant 0.27
fprA 3474601 p.Arg199Gly missense_variant 0.25
fbiB 3641955 p.Gly141Arg missense_variant 0.3
fbiB 3642734 c.1200G>C synonymous_variant 0.2
ddn 3987013 p.Gly57Ala missense_variant 0.18
clpC1 4038857 c.1848C>A synonymous_variant 0.16
clpC1 4039363 p.Ala448Pro missense_variant 0.31
clpC1 4039932 p.Gly258Val missense_variant 0.21
embC 4241056 c.1194C>G synonymous_variant 0.27
embC 4241128 c.1266G>C synonymous_variant 0.2
embC 4241429 p.Phe523Val missense_variant 0.39
embC 4241456 p.Ala532Pro missense_variant 0.4
embC 4242425 p.Arg855Gly missense_variant 0.17
embC 4242822 p.Val987Gly missense_variant 0.55
embC 4242827 p.Leu989Val missense_variant 0.35
aftB 4268812 p.Ser9Ala missense_variant 0.23
ubiA 4269529 p.Ala102Gly missense_variant 0.23
ethA 4327672 c.-199G>A upstream_gene_variant 0.34
whiB6 4338595 c.-75delG upstream_gene_variant 1.0