TB-Profiler result

Run: ERR10796614
Summary

Run ID: ERR10796614

Sample name:

Date: 31-03-2023 11:12:33

Number of reads: 554556

Percentage reads mapped: 100.0

Strain: lineage4

Drug-resistance: Other

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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
lineage4 Euro-American LAM;T;S;X;H None 1.0
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
pncA 2288818 p.Thr142Ala missense_variant 0.1 pyrazinamide
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 5982 p.Ser248Ile missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 8438 p.Tyr379* stop_gained 0.14
gyrA 8477 c.1176C>A synonymous_variant 0.15
gyrA 8650 p.Arg450His missense_variant 0.11
gyrA 9087 p.Val596Met missense_variant 0.12
fgd1 491739 c.957G>T synonymous_variant 0.1
mshA 576185 p.Pro280Thr missense_variant 0.5
rpoB 759793 c.-14T>C upstream_gene_variant 0.2
rpoB 760762 p.Gly319Asp missense_variant 0.14
rpoB 761270 c.1464C>T synonymous_variant 0.4
rpoB 762022 p.Asp739Gly missense_variant 0.1
rpoC 766168 c.2799C>A synonymous_variant 0.18
rpoC 766770 p.Leu1134Pro missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775741 p.Leu914Met missense_variant 0.1
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801256 p.Ser150Thr missense_variant 0.22
Rv1258c 1406189 c.1152A>T synonymous_variant 0.22
embR 1416663 p.Arg229Ser missense_variant 0.15
embR 1417460 c.-113G>A upstream_gene_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673244 c.-196T>C upstream_gene_variant 0.13
inhA 1674617 c.420delC frameshift_variant 0.25
inhA 1674670 p.Ala157Ser missense_variant 0.17
rpsA 1833356 c.-186A>C upstream_gene_variant 0.5
rpsA 1833396 c.-146T>C upstream_gene_variant 0.2
rpsA 1833438 c.-104C>T upstream_gene_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101789 c.1254G>T synonymous_variant 0.25
ndh 2102502 p.Thr181Ser missense_variant 0.11
katG 2155441 p.Gln224Arg missense_variant 0.1
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223350 c.-186T>C upstream_gene_variant 0.11
pncA 2289531 c.-290G>A upstream_gene_variant 0.11
folC 2747561 p.Ser13Leu missense_variant 0.25
ribD 2986990 p.Gly51Asp missense_variant 0.12
ribD 2987208 p.Gly124Ser missense_variant 0.29
ribD 2987531 c.693C>T synonymous_variant 0.17
thyA 3073747 p.Thr242Ile missense_variant 0.1
thyA 3074343 c.129G>T synonymous_variant 0.11
ald 3087126 p.Cys103Arg missense_variant 0.15
ald 3087774 p.Pro319Ser missense_variant 0.12
fprA 3474116 p.Asp37Gly missense_variant 0.15
fprA 3474703 p.Ile233Phe missense_variant 0.22
Rv3236c 3612237 p.Ala294Thr missense_variant 0.15
Rv3236c 3612909 p.Leu70Val missense_variant 0.22
Rv3236c 3612962 p.Ala52Val missense_variant 0.12
fbiA 3641072 p.Arg177His missense_variant 0.13
fbiB 3642666 p.Gly378Arg missense_variant 0.29
alr 3840198 p.Arg408His missense_variant 0.25
alr 3841308 p.Ala38Val missense_variant 0.11
clpC1 4039729 p.Asp326Asn missense_variant 1.0
panD 4043979 p.Tyr101* stop_gained 0.11
panD 4044324 c.-43C>A upstream_gene_variant 0.12
embC 4240210 c.348C>T synonymous_variant 0.18
embA 4242955 c.-278C>T upstream_gene_variant 0.13
embB 4246879 c.366C>G synonymous_variant 0.2
embB 4247377 c.864G>C synonymous_variant 0.17
embB 4248686 p.Gly725Arg missense_variant 0.13
embB 4248954 p.Asp814Gly missense_variant 0.67
embB 4249674 p.Ser1054Tyr missense_variant 0.11
aftB 4268731 p.Arg36Trp missense_variant 0.17
aftB 4268855 c.-19G>T upstream_gene_variant 0.22
ubiA 4269025 p.Leu270Gln missense_variant 0.18
ubiA 4269728 p.Pro36Ser missense_variant 0.18
ethR 4326559 c.-990A>G upstream_gene_variant 0.29
ethA 4326951 p.Ala175Thr missense_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407690 c.513A>T synonymous_variant 0.14
gid 4408413 c.-211C>T upstream_gene_variant 0.22