TB-Profiler result

Run: ERR4814914
Summary

Run ID: ERR4814914

Sample name:

Date: 01-04-2023 13:33:42

Number of reads: 283905

Percentage reads mapped: 97.11

Strain:

Drug-resistance: HR-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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 1.0 streptomycin
katG 2155090 p.Trp341Ser missense_variant 0.22 isoniazid
gid 4408137 p.Tyr22* stop_gained 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9658 p.Thr786Asn missense_variant 0.5
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 760251 p.Gly149Cys missense_variant 0.5
rpoB 761034 p.Thr410Ala missense_variant 0.4
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 765925 c.2556C>T synonymous_variant 0.29
rpoC 765963 p.Leu865Ser missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777940 p.Gly181Ser missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304291 p.Asp454Val missense_variant 0.15
fbiC 1305203 c.2277dupC frameshift_variant 0.33
embR 1417037 p.Ser104Asn missense_variant 0.5
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 1.0
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 1.0
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 1.0
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918262 p.Val108Ala missense_variant 0.22
katG 2154400 p.Arg571His missense_variant 0.67
katG 2155484 p.Tyr210Asn missense_variant 0.4
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2223222 c.-58T>C upstream_gene_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
pepQ 2859468 c.951G>A synonymous_variant 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339660 c.544delT frameshift_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3841473 c.-53G>A upstream_gene_variant 1.0
rpoA 3877844 p.Ala222Pro missense_variant 0.25
rpoA 3878019 c.489A>G synonymous_variant 0.22
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244639 c.1407G>C synonymous_variant 0.2
embA 4246494 p.Gly1088Arg missense_variant 0.15
embB 4249481 c.2969_2970delTC frameshift_variant 0.25
aftB 4266984 p.Pro618His missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408019 p.Gly62Ser missense_variant 0.2