TB-Profiler result

Run: ERR9786907
Summary

Run ID: ERR9786907

Sample name:

Date: 02-04-2023 12:50:46

Number of reads: 1091821

Percentage reads mapped: 99.59

Strain: lineage6.3.1;lineage4.8

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 0.58
lineage6 West-Africa 2 AFRI_1 RD702 0.38
lineage6.3 West-Africa 2 AFRI_1 RD702 0.39
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.56
lineage6.3.1 West-Africa 2 AFRI_1 RD702 0.41
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 0.42
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 0.39
gyrA 9143 c.1842T>C synonymous_variant 0.37
gyrA 9304 p.Gly668Asp missense_variant 0.4
fgd1 491668 p.Lys296Glu missense_variant 0.23
fgd1 491742 c.960T>C synonymous_variant 0.46
rpoB 759765 c.-42A>G upstream_gene_variant 0.49
rpoB 760969 p.Ser388Leu missense_variant 0.39
rpoB 761723 p.Glu639Asp missense_variant 0.36
rpoC 763031 c.-339T>C upstream_gene_variant 0.47
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.49
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 0.38
atpE 1461251 c.207G>T synonymous_variant 0.42
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.55
inhA 1674434 p.Val78Ala missense_variant 0.35
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102694 p.Val117Ile missense_variant 0.45
katG 2154724 p.Arg463Leu missense_variant 0.52
katG 2155503 c.609C>T synonymous_variant 0.4
PPE35 2167926 p.Leu896Ser missense_variant 0.38
Rv1979c 2222308 p.Asp286Gly missense_variant 0.42
Rv1979c 2222852 p.Ala105Thr missense_variant 0.28
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289859 c.-618C>T upstream_gene_variant 0.63
kasA 2518132 c.18C>T synonymous_variant 0.39
ald 3086728 c.-92C>T upstream_gene_variant 0.39
ald 3086788 c.-32T>C upstream_gene_variant 0.46
ald 3087084 c.266delA frameshift_variant 0.28
ald 3087095 c.276C>T synonymous_variant 0.7
Rv3083 3449781 c.1278G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 0.33
fprA 3474707 p.Thr234Asn missense_variant 0.4
fprA 3475159 p.Asn385Asp missense_variant 0.41
rpoA 3877696 p.Thr271Ile missense_variant 0.45
rpoA 3878051 p.Arg153Trp missense_variant 0.53
rpoA 3878626 c.-119A>G upstream_gene_variant 1.0
embC 4239923 p.Asp21Asn missense_variant 0.25
embC 4240671 p.Thr270Ile missense_variant 0.26
embC 4241843 p.Leu661Ile missense_variant 0.31
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 0.39
embA 4244379 p.Pro383Ser missense_variant 0.29
embB 4246864 c.351C>T synonymous_variant 0.35
embB 4247646 p.Glu378Ala missense_variant 0.43
aftB 4268477 c.360C>T synonymous_variant 0.3
aftB 4269351 c.-515C>T upstream_gene_variant 0.46
ubiA 4269387 p.Glu149Asp missense_variant 0.5
aftB 4269522 c.-686C>T upstream_gene_variant 0.35
aftB 4269606 c.-770T>C upstream_gene_variant 0.35
ethA 4326465 p.Ile337Val missense_variant 0.39
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 0.42