TB-Profiler result

Run: SRR11972244
Summary

Run ID: SRR11972244

Sample name:

Date: 03-04-2023 05:33:14

Number of reads: 163067

Percentage reads mapped: 99.3

Strain:

Drug-resistance: MDR-TB

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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
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 0.98
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
rpoB 761155 p.Ser450Leu missense_variant 1.0 rifampicin
rpsL 781687 p.Lys43Arg missense_variant 1.0 streptomycin
katG 2155168 p.Ser315Thr missense_variant 1.0 isoniazid
embB 4247730 p.Gly406Ala missense_variant 1.0 ethambutol
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
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
mshA 576259 c.912C>T synonymous_variant 0.67
ccsA 620625 p.Ile245Met missense_variant 1.0
ccsA 620794 p.Ala302Ser missense_variant 0.13
rpoB 759867 p.Ser21Pro missense_variant 0.22
rpoB 760040 c.234T>C synonymous_variant 0.3
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763827 p.Ala153Val missense_variant 0.67
rpoC 764058 p.Ala230Val missense_variant 1.0
rpoC 764916 p.Leu516Pro missense_variant 1.0
rpoC 765659 p.Ala764Thr missense_variant 0.33
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
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471890 n.45G>T non_coding_transcript_exon_variant 0.12
rrs 1473229 n.1384T>C non_coding_transcript_exon_variant 0.15
rpsA 1834177 c.636A>C synonymous_variant 1.0
rpsA 1834559 p.Val340Ile missense_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918449 c.510C>T synonymous_variant 0.4
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156203 c.-92C>A upstream_gene_variant 0.25
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168496 p.Ile706Thr missense_variant 0.18
PPE35 2168718 p.Thr632Met missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289842 c.-601G>T upstream_gene_variant 0.4
kasA 2518809 p.Lys232Arg missense_variant 0.5
folC 2746693 c.906G>T synonymous_variant 0.5
folC 2747437 p.Met54Ile missense_variant 1.0
thyX 3068148 c.-203A>T upstream_gene_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449355 p.Ser284Arg missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
alr 3840435 p.Leu329Gln missense_variant 0.4
alr 3841546 c.-126C>A upstream_gene_variant 0.33
alr 3841613 c.-193A>G upstream_gene_variant 0.11
ddn 3986959 p.Gly39Asp missense_variant 0.25
embC 4241958 p.Arg699Leu missense_variant 1.0
embC 4242102 p.Lys747Arg missense_variant 0.29
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4245587 c.-927G>A upstream_gene_variant 0.29
embB 4248152 p.Ala547Thr missense_variant 0.14
embB 4248326 p.Ala605Thr missense_variant 0.11
embB 4248356 p.Ser615Pro missense_variant 0.12
embB 4249409 p.Pro966Ser missense_variant 0.13
aftB 4267647 p.Asp397Gly missense_variant 1.0
ubiA 4269344 p.Gly164Arg missense_variant 0.67
aftB 4269753 c.-917G>A upstream_gene_variant 0.29
ethA 4326855 p.Arg207Cys missense_variant 0.33
ethA 4328314 c.-841G>A upstream_gene_variant 0.5
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