TB-Profiler result

Run: ERR11050070
Summary

Run ID: ERR11050070

Sample name:

Date: 02-04-2023 10:19:54

Number of reads: 3425231

Percentage reads mapped: 99.76

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
gyrA 7362 p.Glu21Gln missense_variant 0.99
gyrA 9647 c.2346C>G synonymous_variant 0.25
mshA 576118 c.771dupC frameshift_variant 0.13
mshA 576442 p.Cys365Trp missense_variant 0.21
mshA 576456 p.Val370Gly missense_variant 0.19
mshA 576606 p.Ala420Gly missense_variant 0.5
mshA 576613 c.1266A>C synonymous_variant 0.43
mshA 576616 c.1269G>C synonymous_variant 0.4
rpoB 761482 p.Ala559Gly missense_variant 0.18
rpoC 764367 p.Gly333Ala missense_variant 0.22
rpoC 766973 p.Ala1202Pro missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305012 c.2082G>C synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.35
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918066 p.Ala43Pro missense_variant 0.29
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.29
pepQ 2860159 p.Ala87Gly missense_variant 0.25
Rv2752c 3064823 p.Val457Leu missense_variant 0.26
Rv2752c 3065602 p.Asp197Gly missense_variant 0.25
fbiD 3339749 p.Val211Ala missense_variant 0.33
fbiD 3339751 p.Ala212Pro missense_variant 0.46
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
rpoA 3878580 c.-73A>C upstream_gene_variant 0.22
rpoA 3878641 c.-134C>G upstream_gene_variant 0.5
clpC1 4040550 p.Leu52Trp missense_variant 0.18
embC 4240409 p.Pro183Ala missense_variant 0.33
embC 4242483 c.2622_2636dupCGAGCAGCGGGACAG disruptive_inframe_insertion 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247016 p.Ser168Trp missense_variant 0.22
embB 4247020 c.507C>G synonymous_variant 0.15
embB 4248328 c.1815G>C synonymous_variant 0.29
aftB 4267400 c.1437G>C synonymous_variant 0.15
whiB6 4338200 p.Asp108His missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0