TB-Profiler result

Run: ERR266607
Summary

Run ID: ERR266607

Sample name:

Date: 31-03-2023 22:59:39

Number of reads: 387351

Percentage reads mapped: 99.0

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.94
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.36
fgd1 491288 p.Gly169Asp missense_variant 0.18
fgd1 491591 p.Lys270Met missense_variant 0.88
fgd1 491742 c.960T>C synonymous_variant 0.13
mshA 575679 p.Asn111Ser missense_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 0.2
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761739 p.Glu645* stop_gained 0.18
rpoB 762645 p.Pro947Ser missense_variant 0.2
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766146 p.Gly926Val missense_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776202 p.Gly760Asp missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472431 n.586G>A non_coding_transcript_exon_variant 0.18
rrs 1472433 n.588G>A non_coding_transcript_exon_variant 0.17
rrs 1473335 n.1490G>A non_coding_transcript_exon_variant 0.17
rrl 1475947 n.2290G>A non_coding_transcript_exon_variant 0.13
tlyA 1917916 c.-24C>T upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.36
PPE35 2169862 p.Asn251His missense_variant 0.2
PPE35 2170257 p.Ser119Leu missense_variant 0.4
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.57
kasA 2518367 p.Arg85Trp missense_variant 0.25
kasA 2518693 c.579C>T synonymous_variant 0.2
eis 2714569 p.Ala255Gly missense_variant 0.27
pepQ 2859970 p.Ala150Val missense_variant 0.29
ribD 2986645 c.-194G>A upstream_gene_variant 0.33
ribD 2986654 c.-185C>A upstream_gene_variant 0.33
ribD 2987098 p.Thr87Ile missense_variant 0.25
thyX 3067784 c.162C>T synonymous_variant 0.22
thyX 3067995 c.-50A>C upstream_gene_variant 0.29
thyA 3073806 c.666C>G synonymous_variant 0.5
thyA 3073916 p.His186Tyr missense_variant 0.18
thyA 3074042 p.Pro144Ser missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339153 p.Leu12Phe missense_variant 0.29
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474445 p.Gly147Ser missense_variant 0.18
fprA 3475263 c.1257G>A synonymous_variant 0.22
whiB7 3568514 p.Ala56Thr missense_variant 0.18
fbiB 3641076 c.-459C>G upstream_gene_variant 0.25
alr 3841509 c.-89A>C upstream_gene_variant 0.33
rpoA 3877994 p.Leu172Phe missense_variant 0.2
ddn 3986785 c.-59G>A upstream_gene_variant 0.18
clpC1 4038305 c.2400C>T synonymous_variant 0.4
clpC1 4038677 c.2028G>A synonymous_variant 0.25
embC 4239842 c.-21C>A upstream_gene_variant 0.33
embC 4239916 c.54C>T synonymous_variant 0.33
embC 4240476 p.Ala205Val missense_variant 0.22
embC 4240763 p.Ala301Thr missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.9
embA 4244044 p.Ser271Leu missense_variant 0.25
embA 4244714 c.1482C>T synonymous_variant 0.2
embB 4246768 c.255C>T synonymous_variant 0.25
aftB 4267089 p.Thr583Asn missense_variant 0.91
aftB 4269228 c.-392C>T upstream_gene_variant 0.15
ethA 4327419 p.Ala19Thr missense_variant 0.13
whiB6 4338202 p.Arg107His missense_variant 0.25
whiB6 4338375 c.147C>A synonymous_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407840 c.363G>A synonymous_variant 0.14
gid 4408082 p.Val41Ile missense_variant 0.22
gid 4408271 c.-69A>C upstream_gene_variant 0.29