TB-Profiler result

Run: ERR2747678
Summary

Run ID: ERR2747678

Sample name:

Date: 31-03-2023 23:29:32

Number of reads: 482040

Percentage reads mapped: 62.54

Strain: La1.8.1

Drug-resistance: Other

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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
La1.8 M.bovis None None 1.0
La1.8.1 M.bovis None 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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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
gyrB 5752 c.513G>A synonymous_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 8741 c.1440C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9217 p.Asp639Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
embR 1416341 p.Gly336Asp missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472120 n.275G>C non_coding_transcript_exon_variant 0.67
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.67
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.5
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.6
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.67
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.5
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.5
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.57
rrs 1472181 n.336G>A non_coding_transcript_exon_variant 0.57
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.5
rrs 1472223 n.378C>G non_coding_transcript_exon_variant 0.43
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.43
rrs 1472228 n.383G>C non_coding_transcript_exon_variant 0.43
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.43
rrs 1472518 n.673G>A non_coding_transcript_exon_variant 0.62
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.72
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.77
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.78
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.73
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.73
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.73
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.73
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.73
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.76
rrs 1472592 n.747C>T non_coding_transcript_exon_variant 0.76
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.79
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.79
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.86
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.57
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.4
rrs 1472659 n.814G>A non_coding_transcript_exon_variant 0.4
rrs 1472698 n.853A>C non_coding_transcript_exon_variant 0.29
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.38
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.43
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.43
rrs 1472719 n.874G>A non_coding_transcript_exon_variant 0.5
rrs 1472733 n.888G>T non_coding_transcript_exon_variant 0.27
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.36
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.31
rrs 1472742 n.897C>A non_coding_transcript_exon_variant 0.31
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.29
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.29
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.29
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.27
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.23
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.18
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.18
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.18
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.29
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.29
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.29
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.22
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.22
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.2
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.2
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.18
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.3
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.22
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.22
rrl 1475750 n.2093A>C non_coding_transcript_exon_variant 1.0
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.6
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.69
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.71
rrl 1476357 n.2700T>A non_coding_transcript_exon_variant 0.71
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.71
rrl 1476359 n.2702C>T non_coding_transcript_exon_variant 0.77
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.76
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.76
rrl 1476381 n.2724G>A non_coding_transcript_exon_variant 0.81
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.76
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.81
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.73
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.73
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.46
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.46
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.29
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102193 p.Arg284Trp missense_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168319 p.Thr765Ile missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
eis 2714633 c.699delC frameshift_variant 0.2
eis 2715125 p.Thr70Ala missense_variant 1.0
Rv2752c 3065988 p.Glu68Asp missense_variant 1.0
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
Rv3083 3449504 p.Gly334Asp missense_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
rpoA 3877793 p.Ala239Ser missense_variant 0.29
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
ddn 3986661 c.-183C>T upstream_gene_variant 0.14
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4267037 c.1800C>T synonymous_variant 0.4
aftB 4267858 p.Ile327Val missense_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0