TB-Profiler result

Run: SRR1181296
Summary

Run ID: SRR1181296

Sample name:

Date: 03-04-2023 04:44:25

Number of reads: 495440

Percentage reads mapped: 94.73

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
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
rrs 1472362 n.517C>T non_coding_transcript_exon_variant 0.57 streptomycin
inhA 1674048 c.-154G>A upstream_gene_variant 1.0 isoniazid, ethionamide
pncA 2288952 p.Gly97Asp missense_variant 1.0 pyrazinamide
embB 4247429 p.Met306Val 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
gyrB 5075 c.-165C>T upstream_gene_variant 1.0
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 7268 c.-34C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7879 p.Asn193Ser missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 0.75
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
rpoB 762731 p.Gln975His missense_variant 0.8
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763552 c.183C>T synonymous_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 0.8
rpoC 763886 c.517C>A synonymous_variant 0.8
rpoC 767123 p.Val1252Leu missense_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
Rv1258c 1406557 p.Trp262Arg missense_variant 0.33
Rv1258c 1406558 p.Gly261Ala missense_variant 0.33
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.4
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.5
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.25
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.29
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.29
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102240 p.Arg268His missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.8
katG 2154986 p.Thr376Pro missense_variant 0.17
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 0.75
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.8
fprA 3475159 p.Asn385Asp missense_variant 1.0
clpC1 4040719 c.-15A>G upstream_gene_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 0.8
embA 4245670 p.Ala813Gly missense_variant 1.0
embB 4246979 p.Gly156Cys missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4267960 p.Val293Met missense_variant 0.67
ubiA 4269293 p.Ala181Thr missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4326148 c.1326G>T synonymous_variant 0.67
ethA 4326439 p.Asn345Lys missense_variant 1.0
whiB6 4338203 p.Arg107Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 0.71
gid 4407588 c.615A>G synonymous_variant 0.83
gid 4407848 p.Ala119Thr missense_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0