TB-Profiler result

Run: SRR6045068
Summary

Run ID: SRR6045068

Sample name:

Date: 04-04-2023 11:52:13

Number of reads: 234426

Percentage reads mapped: 13.2

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
gyrB 6022 c.783G>T synonymous_variant 0.14
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 8624 c.1323G>T synonymous_variant 1.0
gyrA 8741 c.1440C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491027 p.Asn82Thr missense_variant 0.5
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763575 p.Arg69Pro missense_variant 1.0
rpoC 766778 p.Glu1137Lys missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 778984 c.-504T>C upstream_gene_variant 0.4
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781568 c.9C>T synonymous_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
fabG1 1673686 p.Glu83* stop_gained 0.33
rpsA 1834859 p.Ala440Thr missense_variant 1.0
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 0.86
PPE35 2168814 c.1798dupA frameshift_variant 1.0
PPE35 2168920 p.Val565Phe missense_variant 1.0
pncA 2289591 c.-350C>T upstream_gene_variant 0.29
kasA 2518132 c.18C>T synonymous_variant 1.0
eis 2714289 p.Glu348Asp missense_variant 0.18
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 3448745 p.Ile81Ser missense_variant 1.0
Rv3083 3448783 p.Val94Ile missense_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
fbiA 3641488 p.Thr316Ala missense_variant 0.22
fbiB 3641883 p.Glu117Lys missense_variant 0.33
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
ddn 3986919 p.Thr26Pro missense_variant 0.22
clpC1 4038403 c.2302T>C synonymous_variant 1.0
clpC1 4039601 c.1104G>A synonymous_variant 0.33
clpC1 4039610 c.1095G>C synonymous_variant 0.25
clpC1 4039616 c.1089G>C synonymous_variant 0.25
clpC1 4039619 c.1086G>A synonymous_variant 0.25
clpC1 4039622 c.1083C>T synonymous_variant 0.25
clpC1 4039649 c.1056G>C synonymous_variant 0.25
clpC1 4039652 c.1053G>A synonymous_variant 0.29
clpC1 4039661 c.1044T>C synonymous_variant 0.25
embC 4240671 p.Thr270Ile missense_variant 0.86
embC 4242029 c.2167C>T synonymous_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
ubiA 4269689 p.Val49Ile missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407887 p.Thr106Ser missense_variant 0.33
Rv1979c 2221058 c.-8682_*660del transcript_ablation 1.0