TB-Profiler result

Run: ERR2245359
Summary

Run ID: ERR2245359

Sample name:

Date: 31-03-2023 17:39:28

Number of reads: 2162478

Percentage reads mapped: 98.59

Strain: lineage4.9

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 0.96
lineage4.9 Euro-American (H37Rv-like) T1 None 0.95
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 8414 c.1113C>T synonymous_variant 1.0
gyrA 8441 c.1140G>T synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9589 p.Val763Gly missense_variant 0.67
rpoB 759713 c.-94C>A upstream_gene_variant 0.5
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777898 p.Asp195Asn missense_variant 1.0
mmpL5 778243 p.Lys80* stop_gained 0.5
rplC 800644 c.-165G>T upstream_gene_variant 0.67
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1475891 n.2234C>A non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154945 c.1167C>A synonymous_variant 0.5
PPE35 2167707 p.Gly969Ala missense_variant 1.0
PPE35 2168153 c.2443_2459delATGACGCCCGAGATAAC frameshift_variant 0.67
Rv1979c 2221875 c.1290G>T synonymous_variant 0.67
Rv1979c 2222519 p.Gly216Cys missense_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
Rv2752c 3064537 p.Val552Glu missense_variant 0.67
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3475196 p.Ser397Thr missense_variant 0.5
whiB7 3568424 p.Pro86Thr missense_variant 0.3
whiB7 3568428 c.252A>G synonymous_variant 0.23
fbiA 3641479 p.Pro313Thr missense_variant 0.67
alr 3841314 p.Ala36Asp missense_variant 1.0
rpoA 3878490 c.18C>G synonymous_variant 0.67
clpC1 4038221 c.2484C>A synonymous_variant 0.67
clpC1 4038981 p.Asp575Ala missense_variant 0.67
clpC1 4039355 c.1350G>T synonymous_variant 0.29
embC 4239879 p.Ala6Gly missense_variant 0.5
embC 4240172 p.Val104Met missense_variant 1.0
embC 4241562 p.Arg567His missense_variant 1.0
embA 4245483 p.Gln751Lys missense_variant 0.67
embB 4248337 c.1824G>T synonymous_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0