TB-Profiler result

Run: ERR4627321
Summary

Run ID: ERR4627321

Sample name:

Date: 01-04-2023 06:31:24

Number of reads: 1404187

Percentage reads mapped: 91.3

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 M.bovis None None 1.0
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
mshA 576108 p.Ala254Gly missense_variant 0.2
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 767042 p.Ser1225Ala missense_variant 0.11
rpoC 767284 c.3915C>T synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776702 c.1779C>T synonymous_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473052 n.1207G>A non_coding_transcript_exon_variant 0.13
rrs 1473053 n.1208T>C non_coding_transcript_exon_variant 0.14
rrs 1473054 n.1209C>G non_coding_transcript_exon_variant 0.13
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.14
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.18
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.18
rrl 1474415 n.758C>A non_coding_transcript_exon_variant 0.22
rrl 1474730 n.1073A>T non_coding_transcript_exon_variant 0.13
rrl 1474860 n.1203G>A non_coding_transcript_exon_variant 0.13
rrl 1475089 n.1432A>G non_coding_transcript_exon_variant 0.12
rrl 1475183 n.1526A>G non_coding_transcript_exon_variant 0.11
rrl 1475750 n.2093A>C non_coding_transcript_exon_variant 1.0
rrl 1476667 n.3010T>A non_coding_transcript_exon_variant 0.2
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
rpsA 1834859 p.Ala440Thr missense_variant 0.97
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 2168259 p.Thr785Lys missense_variant 0.17
PPE35 2168319 p.Thr765Ile missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.17
PPE35 2170053 p.Thr187Ser missense_variant 0.19
PPE35 2170143 p.Gly157Val missense_variant 0.12
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2519117 p.Ala335Pro missense_variant 0.12
kasA 2519181 p.Val356Ala missense_variant 0.11
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 3449285 p.Trp261* stop_gained 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474039 c.33C>A synonymous_variant 0.12
fprA 3474101 p.Leu32Arg missense_variant 0.12
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568582 p.Pro33Arg missense_variant 0.11
fbiA 3640990 p.Cys150Arg missense_variant 0.11
rpoA 3878630 c.-124delC upstream_gene_variant 0.88
clpC1 4038403 c.2302T>C synonymous_variant 1.0
panD 4043989 p.Ala98Val missense_variant 0.12
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
embC 4242981 p.Met1040Thr missense_variant 1.0
embA 4243210 c.-22delG upstream_gene_variant 0.11
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244322 p.Ala364Ser missense_variant 0.12
embB 4245641 c.-873C>T upstream_gene_variant 0.14
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247028 p.Leu172Arg missense_variant 0.29
embB 4247646 p.Glu378Ala missense_variant 1.0
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
ethR 4327741 p.Phe65Ile missense_variant 0.15
ethR 4327777 p.Asp77Asn missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0