TB-Profiler result

Run: SRR13837916
Summary

Run ID: SRR13837916

Sample name:

Date: 03-04-2023 09:21:59

Number of reads: 1488242

Percentage reads mapped: 97.25

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 5760 p.Trp174Leu missense_variant 1.0
gyrB 6662 p.Phe475Val missense_variant 1.0
rpoB 760087 p.Ser94Phe missense_variant 0.98
rpoC 766854 p.Leu1162Gln missense_variant 0.97
mmpL5 778416 p.Pro22Leu missense_variant 1.0
rplC 801126 c.318C>T synonymous_variant 0.98
rrl 1475354 n.1697A>T non_coding_transcript_exon_variant 0.97
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.11
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.12
rrl 1476086 n.2429G>A non_coding_transcript_exon_variant 0.12
rrl 1476089 n.2432T>C non_coding_transcript_exon_variant 0.13
inhA 1674867 p.Trp222Cys missense_variant 0.98
rpsA 1833619 c.78A>C synonymous_variant 0.13
rpsA 1833724 c.183C>G synonymous_variant 0.12
rpsA 1833727 c.186G>C synonymous_variant 0.12
katG 2154601 p.Gly504Val missense_variant 1.0
Rv1979c 2222910 c.255A>G synonymous_variant 1.0
kasA 2518672 c.558G>C synonymous_variant 0.12
kasA 2518687 c.573C>T synonymous_variant 0.11
kasA 2518702 c.588C>T synonymous_variant 0.12
kasA 2518714 c.600A>C synonymous_variant 0.12
pepQ 2859714 c.705C>A synonymous_variant 1.0
ald 3087172 p.Glu118Ala missense_variant 1.0
ald 3087905 c.1086G>A synonymous_variant 1.0
fprA 3475069 c.1064dupA frameshift_variant&stop_gained 0.97
Rv3236c 3613280 c.-164G>C upstream_gene_variant 1.0
alr 3841499 c.-79C>T upstream_gene_variant 1.0
rpoA 3878156 p.Val118Met missense_variant 0.98
clpC1 4039113 p.Ala531Asp missense_variant 0.97
embC 4242095 p.Ala745Pro missense_variant 1.0
embB 4247621 c.1108C>T synonymous_variant 1.0
aftB 4269585 c.-749G>A upstream_gene_variant 0.98
ubiA 4269776 p.Ala20Pro missense_variant 1.0
ethA 4328211 c.-739delG upstream_gene_variant 1.0