TB-Profiler result

Run: ERR2228808
Summary

Run ID: ERR2228808

Sample name:

Date: 31-03-2023 16:21:44

Number of reads: 1256486

Percentage reads mapped: 99.35

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 6386 p.Phe383Leu missense_variant 0.15
gyrA 7362 p.Glu21Gln missense_variant 0.97
fgd1 491489 p.Asp236Ala missense_variant 0.22
ccsA 619738 c.-153T>G upstream_gene_variant 0.17
rpoB 759770 c.-37C>G upstream_gene_variant 0.11
rpoB 761755 p.Asp650Gly missense_variant 0.14
rpoB 763125 p.Pro1107Ser missense_variant 1.0
rpoC 763920 p.Leu184Arg missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775643 c.2838A>C synonymous_variant 0.32
mmpL5 777592 p.Ser297Ala missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
atpE 1461049 p.Asp2Ala missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471830 n.-16A>T upstream_gene_variant 0.26
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474021 n.364A>T non_coding_transcript_exon_variant 0.33
rrl 1474033 n.376A>T non_coding_transcript_exon_variant 0.22
rrl 1474039 n.382A>T non_coding_transcript_exon_variant 0.25
rrl 1475576 n.1919C>A non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168038 p.Phe859Ile missense_variant 0.27
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169029 p.Asp528Glu missense_variant 0.27
PPE35 2170048 p.Leu189Val missense_variant 0.15
PPE35 2170053 p.Thr187Ser missense_variant 0.18
Rv1979c 2222669 p.Ser166Ala missense_variant 0.22
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.93
kasA 2518695 p.Val194Gly missense_variant 0.36
ahpC 2726514 p.Phe108Ile missense_variant 0.24
folC 2747120 p.Phe160Cys missense_variant 0.19
ald 3086671 c.-149T>A upstream_gene_variant 0.16
alr 3841546 c.-126C>A upstream_gene_variant 0.2
rpoA 3878490 c.18C>G synonymous_variant 0.5
embC 4242252 p.Asp797Ala missense_variant 0.26
embA 4242643 c.-590C>T upstream_gene_variant 0.98
aftB 4268826 p.Val4Gly missense_variant 0.28
ubiA 4269308 p.Phe176Val missense_variant 0.15
ethA 4327520 c.-47T>A upstream_gene_variant 0.14
ethR 4328009 p.Asp154Ala missense_variant 0.25
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0