TB-Profiler result

Run: ERR9786886
Summary

Run ID: ERR9786886

Sample name:

Date: 02-04-2023 12:49:49

Number of reads: 1704347

Percentage reads mapped: 99.65

Strain: lineage6.1.2;lineage4.6.2.2

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 0.8
lineage6 West-Africa 2 AFRI_1 RD702 0.24
lineage4.6 Euro-American T;LAM None 0.74
lineage6.1.2 West-Africa 2 AFRI_1 RD702 0.19
lineage4.6.2 Euro-American T;LAM RD726 0.76
lineage4.6.2.2 Euro-American (Cameroon) LAM10-CAM RD726 0.78
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 6446 p.Ala403Ser missense_variant 0.29
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8493 p.Leu398Phe missense_variant 0.21
gyrA 9143 c.1842T>C synonymous_variant 0.22
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9558 p.Val753Ile missense_variant 0.22
fgd1 491668 p.Lys296Glu missense_variant 0.29
fgd1 491742 c.960T>C synonymous_variant 0.29
rpoB 760017 p.Arg71Trp missense_variant 0.28
rpoB 760855 p.Thr350Ile missense_variant 0.19
rpoB 760969 p.Ser388Leu missense_variant 0.21
rpoB 761723 p.Glu639Asp missense_variant 0.21
rpoC 763031 c.-339T>C upstream_gene_variant 0.23
rpoC 766231 c.2862T>C synonymous_variant 0.24
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.24
mmpR5 778298 c.-692C>T upstream_gene_variant 0.67
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 0.15
fbiC 1305494 c.2565_*55delGGCCTAGCCCCGGCGACGATGCCGGGTCGCGGGATGCGGCCCGTTGAGGAGCGGGGCAATCT frameshift_variant&stop_lost&splice_region_variant 0.13
Rv1258c 1406685 p.Val219Ala missense_variant 0.32
embR 1416633 p.Leu239Val missense_variant 0.25
atpE 1461251 c.207G>T synonymous_variant 0.24
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.15
inhA 1674434 p.Val78Ala missense_variant 0.23
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 0.28
katG 2155503 c.609C>T synonymous_variant 0.26
PPE35 2167926 p.Leu896Ser missense_variant 0.23
Rv1979c 2221746 c.1416_1418dupCCG disruptive_inframe_insertion 0.62
Rv1979c 2222308 p.Asp286Gly missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 0.27
Rv2752c 3066076 c.115delC frameshift_variant 0.79
ald 3086728 c.-92C>T upstream_gene_variant 0.35
ald 3086788 c.-32T>C upstream_gene_variant 0.3
ald 3087084 c.266delA frameshift_variant 0.32
ald 3087378 p.Ala187Thr missense_variant 0.7
Rv3083 3448567 p.His22Asp missense_variant 0.8
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 0.38
Rv3236c 3612143 p.Arg325His missense_variant 0.23
fbiB 3640938 c.-597A>T upstream_gene_variant 0.72
fbiB 3641415 c.-120C>T upstream_gene_variant 0.3
alr 3840590 c.831G>T synonymous_variant 0.79
embC 4240671 p.Thr270Ile missense_variant 0.15
embC 4241843 p.Leu661Ile missense_variant 0.19
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 0.3
embA 4244379 p.Pro383Ser missense_variant 0.15
embB 4246864 c.351C>T synonymous_variant 0.33
embB 4247646 p.Glu378Ala missense_variant 0.25
aftB 4267272 p.Lys522Arg missense_variant 0.83
aftB 4269351 c.-515C>T upstream_gene_variant 0.32
ubiA 4269387 p.Glu149Asp missense_variant 0.25
aftB 4269522 c.-686C>T upstream_gene_variant 0.21
aftB 4269606 c.-770T>C upstream_gene_variant 0.25
ethA 4326465 p.Ile337Val missense_variant 0.21
ethR 4326739 c.-810G>C upstream_gene_variant 0.77
ethA 4328004 c.-531C>T upstream_gene_variant 0.79
whiB6 4338471 p.Arg17Ser missense_variant 0.77
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.2
gid 4408034 p.Glu57Lys missense_variant 0.21