Table 4 Top-five assemblies by biological structure for P. xanthii with their respective mean distances from references
Assembly ID | Module 1 | Module 2 | Module 3 | MD |
|---|---|---|---|---|
Haustorium | ||||
scOases_cat_cd_rcMin2 | ||||
Concatenation of the two OASES-scaffolded assemblies with different kmers, sequence redundancy removal and Minimus2 reconciliation | 0.3848 | |||
scOases_cat | ||||
Concatenation of the two OASES-scaffolded assemblies with different kmers | 0.3850 | |||
scOases_cat_cd | ||||
Concatenation of the two OASES-scaffolded assemblies with different kmers and sequence redundancy removal | 0.3861 | |||
scSoap_cat_cd | ||||
Concatenation of the two SOAP-scaffolded assemblies with different kmers and sequence redundancy removal | 0.3887 | |||
scOasesK35 | ||||
OASES-scaffolded assembly with k-mer 35 | 0.3915 | |||
Epiphytic structures | ||||
ctMIRA_ctEulK29_rcCAP3 | ||||
CAP3-reconciled assembly | 0.0558 | |||
ctMIRA | ||||
MIRA4-primary assembly | 0.0688 | |||
ctEulK29 | ||||
EULER-SR primary assembly with k-mer 29 | 0.1435 | |||
Comprehensive transcriptome | ||||
arMIRA/scSoap_cat_cd_rcMin2 | ||||
Concatenation of the two SOAP-scaffolded assemblies with different kmers, sequence redundancy removal and Minimus2 reconciliation | Pre-processed reads | Assembly-reads combination using MIRA4 | 0.0470 | |
arMIRA/ctSoapK25 | ||||
SOAP-primary assembly with k-mer 25 | Pre-processed reads | Assembly-reads combination using MIRA4 | 0.0473 | |
arMIRA/scRay_cat_cd_rcMin2 | ||||
Concatenation of the two RAY-scaffolded assemblies with different kmers, sequence redundancy removal and Minimus2 reconciliation | Pre-processed reads | Assembly-reads combination using MIRA4 | 0.0476 | |
arMIRA/ctRayK35 | ||||
RAY-primary assembly with k-mer 35 | Pre-processed reads | Assembly-reads combination using MIRA4 | 0.0479 | |
arMIRA/ctSoap_cat_cd_rcMin2 | ||||
Concatenation of the two SOAP-primary assembling kmers, sequence redundancy removal and Minimus2 reconciliation | Pre-processed reads | Assembly-reads combination using MIRA4 | 0.0479 | |