TB-Profiler result

Run: ERR4817433
Summary

Run ID: ERR4817433

Sample name:

Date: 01-04-2023 14:59:28

Number of reads: 97805

Percentage reads mapped: 76.42

Strain: lineage4.9;lineage3

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
lineage3 East-African-Indian CAS RD750 0.06
lineage4.9 Euro-American (H37Rv-like) T1 None 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
fgd1 491093 p.Gly104Asp missense_variant 0.29
fgd1 491101 p.Thr107Ala missense_variant 0.33
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 762759 p.Cys985Arg missense_variant 0.67
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 779100 c.-620A>G upstream_gene_variant 1.0
mmpL5 779107 c.-627A>G upstream_gene_variant 0.67
mmpL5 779118 c.-638C>T upstream_gene_variant 0.5
mmpL5 779119 c.-639G>A upstream_gene_variant 0.5
rpsL 781748 c.189C>T synonymous_variant 0.67
embR 1416210 p.Ile380Val missense_variant 0.67
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.67
rrl 1476535 n.2878G>A non_coding_transcript_exon_variant 0.67
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.67
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.67
rpsA 1834012 c.471G>T synonymous_variant 0.67
rpsA 1834015 c.474G>C synonymous_variant 0.67
rpsA 1834025 p.Gln162Ala missense_variant 0.67
rpsA 1834030 c.489C>G synonymous_variant 0.67
rpsA 1834040 p.Lys167Gln missense_variant 0.5
rpsA 1834046 p.Ile169Leu missense_variant 0.5
rpsA 1834093 c.552G>C synonymous_variant 0.67
katG 2154724 p.Arg463Leu missense_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
eis 2715434 c.-102G>A upstream_gene_variant 0.5
Rv2752c 3064668 c.1524G>A synonymous_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3642877 p.Lys448Arg missense_variant 1.0
embC 4240374 c.514dupG frameshift_variant 0.33
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269484 p.Ala117Val missense_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0