-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1980

-reading genomic sequence.

** Processing features (+)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: +)
-loading gene prediction evidence. (strand: +)Couldn't classify 260, 377
Couldn't classify 1551, 1600
Sorry, prediction GeneMark_model.109918_t fails validation.
(ACT)	 AG	260-377	GT	AGG
(GTG)	 AG	947-1077	GT	TGG
(GTC)	 AG	1343-1386	GT	AGG
(CTG)	 AG	1551-1600	GT	TGG
-recovered GeneMark_model.109918_t, internal, 260, 377
-recovered GeneMark_model.109918_t, internal, 947, 1077
-recovered GeneMark_model.109918_t, internal, 1343, 1386
-recovered GeneMark_model.109918_t, internal, 1551, 1600
Couldn't classify 260, 377
Sorry, prediction snap_scaffold_1980-snap.1-T1 fails validation.
(ACT)	 AG	260-377	GT	AGG
(GTG)	 AG	947-1105	GA	GAG
-recovered snap_scaffold_1980-snap.1-T1, terminal, 947, 1105
-recovered snap_scaffold_1980-snap.1-T1, internal, 260, 377
Couldn't classify 260, 377
Couldn't classify 1551, 1600
Sorry, prediction Augustus_model.g41899.t1 fails validation.
(ACT)	 AG	260-377	GT	AGG
(GTG)	 AG	947-1077	GT	TGG
(GTC)	 AG	1343-1386	GT	AGG
(CTG)	 AG	1551-1600	GT	TGG
-recovered Augustus_model.g41899.t1, internal, 260, 377
-recovered Augustus_model.g41899.t1, internal, 947, 1077
-recovered Augustus_model.g41899.t1, internal, 1343, 1386
-recovered Augustus_model.g41899.t1, internal, 1551, 1600
Valid prediction for GlimmerHMM_glimmerT_62920-T1
Couldn't classify 261, 377
Couldn't classify 1551, 1570
Sorry, prediction pasa_asmbl_22800.p1 fails validation.
(CTA)	 GA	261-377	GT	AGG
(GTG)	 AG	947-1077	GT	TGG
(GTC)	 AG	1343-1386	GT	AGG
(CTG)	 AG	1551-1570	CT	AGC
-recovered pasa_asmbl_22800.p1, internal, 947, 1077
-recovered pasa_asmbl_22800.p1, internal, 1343, 1386

-loading the search evidence (protein and EST search results, strand: +)
-scoring exons (strand: +)

** Processing features (-)

-finding all potential splice sites, looking for GT/GC donors and AG acceptors.
-finding all potential starts and stops. (strand: -)
-loading gene prediction evidence. (strand: -)
-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 1699
-exon list size: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support