TB-Profiler result

Run: ERR2229038
Summary

Run ID: ERR2229038

Sample name:

Date: 31-03-2023 16:31:33

Number of reads: 485682

Percentage reads mapped: 99.47

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 1.0
fgd1 491159 p.Lys126Met missense_variant 0.11
mshA 576351 p.Asp335Gly missense_variant 0.17
ccsA 620707 p.Val273Met missense_variant 0.22
rpoB 759861 c.58delA frameshift_variant 0.12
rpoB 760510 c.707delG frameshift_variant 0.11
rpoB 760865 c.1059_1060insA frameshift_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777119 p.His454Gln missense_variant 0.35
mmpL5 777122 c.1359C>T synonymous_variant 0.35
mmpL5 777128 c.1353A>G synonymous_variant 0.35
mmpL5 777766 p.Gly239Arg missense_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rpsA 1834710 p.Tyr390Cys missense_variant 0.14
rpsA 1834789 c.1248T>A synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154262 p.Leu617His missense_variant 0.17
PPE35 2167745 p.Thr956Arg missense_variant 0.18
PPE35 2167871 c.2742G>T synonymous_variant 0.14
PPE35 2168140 p.Ala825Thr missense_variant 0.17
PPE35 2168143 p.Phe824Leu missense_variant 0.17
PPE35 2168150 c.2463T>C synonymous_variant 0.17
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169278 c.1335T>C synonymous_variant 0.11
PPE35 2169281 c.1332T>G synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518430 p.Asp106Tyr missense_variant 0.12
kasA 2519128 c.1014G>C synonymous_variant 0.13
kasA 2519131 c.1017G>C synonymous_variant 0.13
kasA 2519153 p.Ile347Val missense_variant 0.13
folC 2747473 c.126C>A synonymous_variant 0.2
ribD 2987045 c.207C>T synonymous_variant 0.33
ribD 2987239 p.Thr134Ile missense_variant 0.17
Rv2752c 3066326 c.-135C>T upstream_gene_variant 0.33
Rv2752c 3066328 c.-137T>C upstream_gene_variant 0.33
thyA 3073979 p.Gln165Lys missense_variant 0.13
Rv3236c 3612241 c.876G>T synonymous_variant 0.11
Rv3236c 3612671 p.Pro149Gln missense_variant 0.22
ddn 3987015 p.Gln58* stop_gained 0.22
embC 4239718 c.-145T>C upstream_gene_variant 0.18
embC 4239822 c.-41_-39delCCGinsTCA upstream_gene_variant 0.27
embC 4240569 p.Leu236His missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242978 p.Leu1039Pro missense_variant 0.2
embC 4243100 p.Val1080Leu missense_variant 0.12
embB 4247055 p.Leu181Gln missense_variant 0.29
aftB 4267944 p.Tyr298Phe 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