TB-Profiler result

Run: ERR4812664
Summary

Run ID: ERR4812664

Sample name:

Date: 01-04-2023 12:14:05

Number of reads: 294688

Percentage reads mapped: 99.26

Strain: lineage2.2

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
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 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
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
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 5929 c.690G>A synonymous_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9111 p.Pro604Thr missense_variant 0.17
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491692 p.Gly304Ser missense_variant 0.2
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 620611 p.Gly241Ser missense_variant 0.12
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoB 760259 p.Phe151Leu missense_variant 0.15
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764143 c.774G>T synonymous_variant 0.22
rpoC 764630 p.Arg421Ser missense_variant 0.18
rpoC 766889 p.Glu1174Lys missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpS5 779615 c.-710C>G upstream_gene_variant 1.0
mmpS5 779630 c.-725T>C upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302768 c.-163G>T upstream_gene_variant 0.18
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
Rv1258c 1406943 p.Ala133Asp missense_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474377 n.720G>T non_coding_transcript_exon_variant 0.25
rrl 1474392 n.735A>G non_coding_transcript_exon_variant 0.15
rpsA 1834177 c.636A>C synonymous_variant 1.0
ndh 2102296 c.747C>T synonymous_variant 0.4
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168580 p.Gly678Val missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860256 p.Ala55Thr missense_variant 1.0
Rv2752c 3064924 p.Ala423Asp missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087460 p.Arg214Gln missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568492 p.Trp63Leu missense_variant 0.29
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3640458 c.-85T>G upstream_gene_variant 0.38
fbiA 3641114 p.Glu191Gly missense_variant 0.4
ddn 3987199 p.Arg119His missense_variant 0.12
clpC1 4040056 p.Glu217Lys missense_variant 0.18
embC 4240016 p.Val52Ile missense_variant 0.12
embC 4240410 p.Pro183Gln missense_variant 0.29
embC 4242866 p.Gly1002Cys missense_variant 0.2
embB 4246349 c.-165C>A upstream_gene_variant 0.4
embB 4247349 p.Thr279Ser missense_variant 0.15
aftB 4267526 c.1311C>T synonymous_variant 0.29
aftB 4267647 p.Asp397Gly missense_variant 1.0
aftB 4268887 c.-51C>A upstream_gene_variant 0.17
ethA 4326761 p.Val238Gly missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0
gid 4407955 p.Arg83Gln missense_variant 0.17