TB-Profiler result

Run: SRR13837699
Summary

Run ID: SRR13837699

Sample name:

Date: 03-04-2023 09:16:10

Number of reads: 295602

Percentage reads mapped: 95.58

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 1.0
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
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 6027 p.His263Arg missense_variant 1.0
mshA 576327 p.Phe327Tyr missense_variant 1.0
rpoB 759707 c.-100C>T upstream_gene_variant 1.0
rpoB 760178 c.372G>C synonymous_variant 1.0
rpoB 760376 p.Asp190Glu missense_variant 0.18
rpoB 762284 c.2478G>A synonymous_variant 1.0
rpoC 764262 p.Val298Ala missense_variant 1.0
rpoC 765700 c.2331T>C synonymous_variant 0.11
rpoC 765772 c.2403C>G synonymous_variant 0.11
rpoC 765784 c.2415C>G synonymous_variant 0.12
rpoC 765796 c.2427C>T synonymous_variant 0.12
rpoC 765811 c.2442T>C synonymous_variant 0.14
rpoC 765835 c.2466C>T synonymous_variant 0.14
mmpL5 777280 p.Ala401Ser missense_variant 1.0
mmpS5 778853 p.Val18Ala missense_variant 1.0
embR 1416662 p.Arg229Pro missense_variant 1.0
rrl 1475483 n.1826C>T non_coding_transcript_exon_variant 0.2
rrl 1475505 n.1848G>A non_coding_transcript_exon_variant 0.2
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.22
rrl 1475599 n.1942A>G non_coding_transcript_exon_variant 0.15
rrl 1475608 n.1951T>C non_coding_transcript_exon_variant 0.18
rrl 1475642 n.1985T>C non_coding_transcript_exon_variant 0.18
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.14
rrl 1475659 n.2002G>T non_coding_transcript_exon_variant 0.15
rrl 1476288 n.2631T>C non_coding_transcript_exon_variant 1.0
rrl 1476682 n.3025C>T non_coding_transcript_exon_variant 0.2
katG 2155675 p.Arg146Leu missense_variant 1.0
Rv1979c 2222433 c.732A>G synonymous_variant 1.0
ald 3086631 c.-189A>G upstream_gene_variant 1.0
Rv3236c 3612954 c.162delC frameshift_variant 1.0
alr 3840284 p.Trp379* stop_gained 1.0
embC 4240042 p.Asn60Lys missense_variant 1.0
embB 4245806 c.-708G>A upstream_gene_variant 0.93
embB 4247075 c.563dupT frameshift_variant 1.0
embB 4247839 c.1326G>A synonymous_variant 1.0
embB 4249763 p.Thr1084Pro missense_variant 1.0
ethA 4326860 p.Leu205Pro missense_variant 1.0