TB-Profiler result

Run: ERR2229002
Summary

Run ID: ERR2229002

Sample name:

Date: 31-03-2023 16:29:59

Number of reads: 374309

Percentage reads mapped: 99.4

Strain: lineage4

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
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
mshA 576221 p.Gly292Trp missense_variant 0.33
rpoB 762901 p.Asp1032Gly missense_variant 0.18
rpoB 763083 p.Arg1093Ser missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775741 c.2740C>T synonymous_variant 0.29
mmpL5 775742 c.2739C>T synonymous_variant 0.25
mmpL5 775747 p.Met912Leu missense_variant 0.29
mmpL5 776729 c.1752C>T synonymous_variant 0.25
mmpL5 777119 p.His454Gln missense_variant 0.22
mmpL5 777122 c.1359C>T synonymous_variant 0.18
mmpL5 777128 c.1353A>G synonymous_variant 0.18
mmpL5 777157 c.1324C>A synonymous_variant 0.15
mmpL5 777164 c.1317C>T synonymous_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
Rv1258c 1406147 c.1194C>A synonymous_variant 0.29
Rv1258c 1406525 c.816G>T synonymous_variant 0.29
rrs 1471659 n.-187C>T upstream_gene_variant 0.96
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475030 n.1373G>T non_coding_transcript_exon_variant 0.12
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673349 c.-91G>C upstream_gene_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.15
inhA 1674505 p.Gly102Trp missense_variant 0.25
inhA 1674524 p.Phe108Ser missense_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2156509 c.-398A>T upstream_gene_variant 0.17
PPE35 2167745 p.Thr956Arg missense_variant 0.3
PPE35 2167865 c.2748G>C synonymous_variant 0.16
PPE35 2167868 c.2745A>C synonymous_variant 0.14
PPE35 2168132 p.Asp827Glu missense_variant 0.29
PPE35 2168140 p.Ala825Thr missense_variant 0.29
PPE35 2168143 p.Phe824Leu missense_variant 0.25
PPE35 2168150 c.2463T>C synonymous_variant 0.22
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169902 c.711G>C synonymous_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.26
PPE35 2170053 p.Thr187Ser missense_variant 0.24
Rv1979c 2222999 p.Ile56Phe missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290009 c.-768A>T upstream_gene_variant 0.18
kasA 2518879 c.765A>G synonymous_variant 0.36
kasA 2518882 c.768C>A synonymous_variant 0.36
kasA 2519140 c.1026G>C synonymous_variant 0.22
kasA 2519143 c.1029G>C synonymous_variant 0.22
kasA 2519188 c.1074G>A synonymous_variant 0.12
folC 2747371 c.228C>G synonymous_variant 0.33
ald 3087844 p.Gly342Asp missense_variant 0.12
Rv3236c 3612467 p.Gln217Leu missense_variant 0.33
fbiB 3642717 p.Ser395Cys missense_variant 0.25
alr 3841043 c.378C>G synonymous_variant 0.13
rpoA 3878051 p.Arg153Trp missense_variant 0.18
clpC1 4038322 p.Gly795Trp missense_variant 0.22
clpC1 4038437 p.Lys756Asn missense_variant 0.2
clpC1 4039151 c.1554C>T synonymous_variant 0.22
embC 4242899 p.Pro1013Thr missense_variant 0.18
embB 4246567 c.54_55insT frameshift_variant 0.5
embB 4247263 c.750G>A synonymous_variant 0.4
embB 4247917 c.1404C>G synonymous_variant 0.29
embB 4248402 p.Ala630Val missense_variant 0.22
aftB 4266982 p.Asp619Asn missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0