TB-Profiler result

Run: ERR4772225
Summary

Run ID: ERR4772225

Sample name:

Date: 01-04-2023 06:46:01

Number of reads: 2656803

Percentage reads mapped: 95.36

Strain: La1.2

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
La1.2 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 7821 c.520C>T synonymous_variant 0.98
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 8741 c.1440C>T synonymous_variant 0.96
gyrA 9143 c.1842T>C synonymous_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 0.18
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
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473417 n.-241C>T upstream_gene_variant 0.13
rrl 1473420 n.-238A>G upstream_gene_variant 0.13
rrl 1473421 n.-237G>A upstream_gene_variant 0.13
rrl 1473797 n.140G>T non_coding_transcript_exon_variant 0.22
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.22
rrl 1473813 n.156C>T non_coding_transcript_exon_variant 0.2
rrl 1473831 n.174G>A non_coding_transcript_exon_variant 0.25
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.5
rrl 1473887 n.230T>A non_coding_transcript_exon_variant 0.33
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.33
rrl 1473899 n.242A>T non_coding_transcript_exon_variant 0.4
rrl 1473918 n.261C>T non_coding_transcript_exon_variant 0.33
rrl 1473924 n.267_268insT non_coding_transcript_exon_variant 0.4
rrl 1473994 n.337C>T non_coding_transcript_exon_variant 0.25
rrl 1473995 n.338G>T non_coding_transcript_exon_variant 0.25
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.25
rrl 1474009 n.352A>G non_coding_transcript_exon_variant 0.25
rrl 1474011 n.354G>A non_coding_transcript_exon_variant 0.25
rrl 1474018 n.361G>A non_coding_transcript_exon_variant 0.25
rrl 1474030 n.373G>A non_coding_transcript_exon_variant 0.27
rrl 1474061 n.404T>C non_coding_transcript_exon_variant 0.27
rrl 1474089 n.432C>T non_coding_transcript_exon_variant 0.29
rrl 1474093 n.436G>A non_coding_transcript_exon_variant 0.33
rrl 1474100 n.443C>T non_coding_transcript_exon_variant 0.4
rrl 1474103 n.446A>T non_coding_transcript_exon_variant 0.4
rrl 1474110 n.453A>G non_coding_transcript_exon_variant 0.4
rrl 1474111 n.454T>C non_coding_transcript_exon_variant 0.4
rrl 1474130 n.473C>T non_coding_transcript_exon_variant 0.25
rrl 1474991 n.1334T>C non_coding_transcript_exon_variant 0.29
rrl 1474995 n.1338T>G non_coding_transcript_exon_variant 0.2
rrl 1475005 n.1348C>T non_coding_transcript_exon_variant 0.2
rrl 1475006 n.1349A>G non_coding_transcript_exon_variant 0.2
rrl 1475007 n.1350C>T non_coding_transcript_exon_variant 0.2
rrl 1475013 n.1356G>A non_coding_transcript_exon_variant 0.22
rrl 1475018 n.1361G>A non_coding_transcript_exon_variant 0.18
rrl 1475027 n.1370G>T non_coding_transcript_exon_variant 0.44
rrl 1475028 n.1371G>T non_coding_transcript_exon_variant 0.44
rrl 1475044 n.1387G>A non_coding_transcript_exon_variant 0.22
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.2
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.18
rrl 1475604 n.1947A>C non_coding_transcript_exon_variant 0.17
rrl 1475605 n.1948A>T non_coding_transcript_exon_variant 0.17
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.17
rrl 1475617 n.1960C>G non_coding_transcript_exon_variant 0.14
rrl 1475625 n.1968G>C non_coding_transcript_exon_variant 0.14
rrl 1475637 n.1980T>A non_coding_transcript_exon_variant 0.14
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.15
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.15
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.15
rrl 1475760 n.2103C>T non_coding_transcript_exon_variant 0.2
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.21
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.33
rrl 1476580 n.2923G>A non_coding_transcript_exon_variant 0.16
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.12
rpsA 1834859 p.Ala440Thr missense_variant 0.98
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102106 p.Gly313Arg 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
katG 2156465 c.-354C>T upstream_gene_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
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
Rv2752c 3065888 p.Val102Ile missense_variant 1.0
thyX 3067786 p.Thr54Ala missense_variant 0.97
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
fbiD 3339154 p.Ile13Leu missense_variant 1.0
Rv3083 3448745 p.Ile81Ser missense_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3473891 c.-116A>C upstream_gene_variant 1.0
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 3878630 c.-124delC upstream_gene_variant 1.0
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 4247173 c.660G>A synonymous_variant 1.0
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
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407743 p.Arg154Trp missense_variant 1.0