TB-Profiler result

Run: ERR4627394

Summary

Run ID: ERR4627394

Sample name:

Date: 01-04-2023 06:35:03

Number of reads: 1266152

Percentage reads mapped: 96.54

Strain:

Drug-resistance: Sensitive


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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
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 5219 c.-21C>G upstream_gene_variant 0.15
gyrB 5658 p.Lys140Thr missense_variant 0.17
gyrB 5671 c.432C>T synonymous_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7872 p.Pro191Ser missense_variant 0.22
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
mshA 576108 p.Ala254Gly missense_variant 0.33
mshA 576119 p.Ala258Pro missense_variant 0.2
rpoB 759837 c.33_44dupTAGTCCTAGTCC disruptive_inframe_insertion 1.0
rpoB 760922 c.1116G>C synonymous_variant 0.18
rpoB 761482 p.Ala559Gly missense_variant 0.25
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766972 c.3603G>A synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 778603 c.-123C>T upstream_gene_variant 0.22
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473079 n.1234G>A non_coding_transcript_exon_variant 1.0
rrl 1474718 n.1061A>T non_coding_transcript_exon_variant 0.22
fabG1 1673380 c.-60C>G upstream_gene_variant 0.38
rpsA 1833841 c.300C>T synonymous_variant 0.13
rpsA 1834035 p.Ile165Asn missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918616 p.Lys226Thr missense_variant 1.0
ndh 2101997 p.Ala349Gly missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156056 p.Gly19Val missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168080 p.Thr845Ala missense_variant 0.25
PPE35 2168270 c.2343G>C synonymous_variant 0.13
PPE35 2168460 p.Asn718Ser missense_variant 1.0
PPE35 2168525 c.2088A>G synonymous_variant 0.13
PPE35 2169631 p.Asn328Asp missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.36
PPE35 2170053 p.Thr187Ser missense_variant 0.4
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289714 c.-473G>A upstream_gene_variant 0.12
pncA 2289786 c.-545G>C upstream_gene_variant 0.25
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.33
kasA 2519178 p.Ser355Leu missense_variant 0.22
folC 2746572 p.Arg343Cys missense_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.2
ribD 2987506 p.Leu223Arg missense_variant 0.18
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.75
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474123 c.117G>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
fbiB 3641616 c.83_88delATCTGA disruptive_inframe_deletion 0.17
fbiB 3641626 p.Ala31Gly missense_variant 0.15
fbiB 3641629 c.95_96insTCAGAT disruptive_inframe_insertion 0.15
rpoA 3878512 c.-6_-5insGAA upstream_gene_variant 1.0
ddn 3987111 p.Leu90Val missense_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.25
embC 4240421 p.Glu187* stop_gained 0.5
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4242176 p.Pro772Ser missense_variant 1.0
embC 4242284 p.Phe808Ile missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4245704 c.-810G>A upstream_gene_variant 1.0
embB 4246184 c.-330A>G upstream_gene_variant 0.11
embB 4246544 p.Thr11Pro missense_variant 0.29
embB 4246548 p.Pro12Gln missense_variant 0.43
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248328 c.1815G>C synonymous_variant 0.33
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ethA 4328227 c.-754C>G upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0