-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_347

-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 7779, 7823
Sorry, prediction GeneMark_model.107375_t fails validation.
(ATG)	 CC	5230-5330	GT	AAG
(GGA)	 AG	5719-5739	GT	GAG
(GGA)	 AG	5782-5817	GT	GGG
(GAG)	 AG	5855-5869	GT	GAG
(AAA)	 AG	5907-5960	GT	AGG
(AGA)	 AG	6032-6117	GT	AAG
(GGG)	 AG	6859-6906	GT	CTG
(ATC)	 AG	7647-7692	GT	AGG
(TTC)	 AG	7713-7745	GT	CAG
(GGG)	 AG	7779-7823	GT	GAG
-recovered GeneMark_model.107375_t, initial, 5230, 5330
-recovered GeneMark_model.107375_t, terminal, 7647, 7692
-recovered GeneMark_model.107375_t, internal, 5719, 5739
-recovered GeneMark_model.107375_t, internal, 5782, 5817
-recovered GeneMark_model.107375_t, internal, 5855, 5869
-recovered GeneMark_model.107375_t, internal, 5907, 5960
-recovered GeneMark_model.107375_t, internal, 6032, 6117
-recovered GeneMark_model.107375_t, internal, 6859, 6906
-recovered GeneMark_model.107375_t, internal, 7647, 7692
-recovered GeneMark_model.107375_t, internal, 7713, 7745
-recovered GeneMark_model.107375_t, internal, 7779, 7823
Valid prediction for GeneMark_model.107373_t
Valid prediction for GeneMark_model.107371_t
add_exon() Sorry, GeneMark_model.107371_t 507-666-terminal-1 is invalid.

-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: -)Valid prediction for GeneMark_model.107372_t
Valid prediction for snap_scaffold_347-snap.1-T1
Couldn't classify 426, 559
Sorry, prediction snap_scaffold_347-snap.3-T1 fails validation.
(AAG)	 AG	426-559	GT	AGG
(GTT)	 AG	615-755	CA	AAC
-recovered snap_scaffold_347-snap.3-T1, terminal, 615, 755
-recovered snap_scaffold_347-snap.3-T1, internal, 426, 559
Valid prediction for snap_scaffold_347-snap.2-T1
Valid prediction for GeneMark_model.107374_t
Couldn't classify 615, 680
Sorry, prediction GlimmerHMM_glimmerT_61735-T1 fails validation.
(GTT)	 AG	615-680	GT	CGG
(CTT)	 AG	5264-5464	CG	GAC
-recovered GlimmerHMM_glimmerT_61735-T1, terminal, 5264, 5464
-recovered GlimmerHMM_glimmerT_61735-T1, internal, 615, 680

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

-building trellis in range 1 - 7874
-exon list size: 36


building trellis

2.6    
5.3    
7.9    
10.5    
13.2    
15.8    
18.4    
21.1    
23.7    
26.3    
28.9    
31.6    
34.2    
36.8    
39.5    
42.1    
44.7    
47.4    
50.0    
52.6    
55.3    
57.9    
60.5    
63.2    
65.8    
68.4    
71.1    
73.7    
76.3    
78.9    
81.6    
84.2    
86.8    
89.5    
92.1    
94.7    
97.4    
-found 3 predictions from path traversal
GOT 5prime partial gene.

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