TB-Profiler result

Run: SRR9940975
Summary

Run ID: SRR9940975

Sample name:

Date: 04-04-2023 23:04:29

Number of reads: 750597

Percentage reads mapped: 99.9

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 5632 c.393A>G synonymous_variant 0.11
gyrB 6464 p.Lys409Glu missense_variant 0.12
gyrB 7127 p.Val630Phe missense_variant 0.14
rpoB 759819 p.Arg5Ser missense_variant 0.15
rpoC 765275 c.1906C>A synonymous_variant 0.11
mmpL5 776778 p.Arg568His missense_variant 0.11
mmpL5 777296 c.1185C>T synonymous_variant 0.14
fbiC 1303614 c.684C>G synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472434 n.589T>C non_coding_transcript_exon_variant 0.1
rrl 1474773 n.1116C>A non_coding_transcript_exon_variant 0.11
fabG1 1673346 c.-94C>G upstream_gene_variant 0.13
fabG1 1673349 c.-91G>C upstream_gene_variant 0.14
fabG1 1673357 c.-83G>A upstream_gene_variant 0.16
fabG1 1673359 c.-81T>C upstream_gene_variant 0.16
fabG1 1673361 c.-79C>G upstream_gene_variant 0.16
fabG1 1673380 c.-60C>G upstream_gene_variant 0.33
rpsA 1834046 p.Ile169Val missense_variant 0.12
ndh 2102538 p.Lys169Gln missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.53
PPE35 2170053 p.Thr187Ser missense_variant 0.53
PPE35 2170385 c.228G>T synonymous_variant 0.25
PPE35 2170598 c.15G>A synonymous_variant 1.0
kasA 2519242 c.1128C>A synonymous_variant 0.25
folC 2746257 p.Asp448His missense_variant 0.11
folC 2747254 c.345C>T synonymous_variant 0.12
Rv2752c 3064855 p.Lys446Arg missense_variant 0.12
Rv3236c 3611992 c.1125T>G synonymous_variant 0.25
rpoA 3878567 c.-60C>G upstream_gene_variant 0.67
clpC1 4040415 p.Gln97Arg missense_variant 0.12
embC 4240432 c.570C>A synonymous_variant 0.11
embC 4240648 c.786C>T synonymous_variant 0.42
embC 4241756 c.1894C>T synonymous_variant 0.15
embA 4245391 p.Lys720Met missense_variant 0.15
embB 4246544 p.Thr11Pro missense_variant 0.2
embB 4248434 c.1928_1930delCCA disruptive_inframe_deletion 0.12
aftB 4267867 p.Leu324Met missense_variant 0.18