TB-Profiler result

Run: ERR023741
Summary

Run ID: ERR023741

Sample name:

Date: 31-03-2023 08:02:31

Number of reads: 320554

Percentage reads mapped: 94.67

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
katG 2155168 p.Ser315Thr missense_variant 0.5 isoniazid
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 7048 p.Lys603Asn missense_variant 0.43
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 9783 p.Val828Met missense_variant 0.17
fgd1 491591 p.Lys270Met missense_variant 0.5
fgd1 491742 c.960T>C synonymous_variant 0.64
mshA 575679 p.Asn111Ser missense_variant 0.67
ccsA 620748 c.858T>G synonymous_variant 0.29
rpoB 759746 c.-61C>T upstream_gene_variant 0.5
rpoB 760115 c.309C>T synonymous_variant 0.88
rpoC 762434 c.-936T>G upstream_gene_variant 0.56
rpoC 763031 c.-339T>C upstream_gene_variant 0.33
rpoC 765150 p.Gly594Glu missense_variant 0.5
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.5
mmpL5 776879 p.Asp534Glu missense_variant 0.12
mmpL5 777679 p.Val268Leu missense_variant 0.67
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.33
rpsA 1834159 c.618G>A synonymous_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.29
katG 2155433 c.679C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 0.5
Rv1979c 2222732 c.432delT frameshift_variant 0.38
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 0.33
pncA 2289365 c.-125delC upstream_gene_variant 0.75
pncA 2289550 c.-309T>A upstream_gene_variant 0.29
kasA 2518076 c.-39C>T upstream_gene_variant 0.47
kasA 2518141 c.29dupG frameshift_variant 0.2
ahpC 2726105 c.-88G>A upstream_gene_variant 0.67
ahpC 2726338 p.Val49Gly missense_variant 0.5
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3613203 c.-87T>C upstream_gene_variant 0.43
fbiB 3641040 c.-495G>T upstream_gene_variant 0.12
clpC1 4038758 c.1947C>T synonymous_variant 0.17
panD 4044023 c.259C>T synonymous_variant 0.5
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407783 c.420C>G synonymous_variant 0.4
gid 4407832 p.Val124Gly missense_variant 0.22