-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_94

-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: +)Valid prediction for GeneMark_model.106526_t
Couldn't classify 15358, 15576
Sorry, prediction GlimmerHMM_glimmerT_61268-T1 fails validation.
(ATG)	 AG	10419-10459	GT	AGG
(GGT)	 AG	11401-11559	GT	AGG
(ACC)	 AG	15358-15576	GT	AGG
-recovered GlimmerHMM_glimmerT_61268-T1, initial, 10419, 10459
-recovered GlimmerHMM_glimmerT_61268-T1, internal, 10419, 10459
-recovered GlimmerHMM_glimmerT_61268-T1, internal, 11401, 11559
-recovered GlimmerHMM_glimmerT_61268-T1, internal, 15358, 15576
Valid prediction for HiQ_model.g40760.t1
Couldn't classify 138, 275
Sorry, prediction GeneMark_model.106521_t fails validation.
(GCG)	 AG	138-275	GT	AGG
(GAC)	 AG	628-738	GT	GAG
-recovered GeneMark_model.106521_t, terminal, 628, 738
-recovered GeneMark_model.106521_t, internal, 138, 275
-recovered GeneMark_model.106521_t, internal, 628, 738
Valid prediction for GeneMark_model.106524_t
Valid prediction for GlimmerHMM_glimmerT_61266-T1
Valid prediction for GeneMark_model.106522_t
Couldn't classify 138, 275
Sorry, prediction snap_scaffold_94-snap.1-T1 fails validation.
(GCG)	 AG	138-275	GT	AGG
(GAC)	 AG	628-729	GT	TGG
(AAC)	 AG	1437-1466	AA	AGA
-recovered snap_scaffold_94-snap.1-T1, terminal, 1437, 1466
-recovered snap_scaffold_94-snap.1-T1, internal, 138, 275
-recovered snap_scaffold_94-snap.1-T1, internal, 628, 729
Valid prediction for snap_scaffold_94-snap.3-T1
Couldn't classify 138, 275
Sorry, prediction Augustus_model.g40758.t1 fails validation.
(GCG)	 AG	138-275	GT	AGG
(GAC)	 AG	628-738	GT	GAG
-recovered Augustus_model.g40758.t1, terminal, 628, 738
-recovered Augustus_model.g40758.t1, internal, 138, 275
-recovered Augustus_model.g40758.t1, internal, 628, 738

-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 snap_scaffold_94-snap.4-T1
Valid prediction for GeneMark_model.106523_t
Valid prediction for GeneMark_model.106525_t
Valid prediction for CodingQuarry_transcript_62322-T1
Valid prediction for snap_scaffold_94-snap.2-T1
Couldn't classify 214, 470
Sorry, prediction GeneMark_model.106527_t fails validation.
(GGA)	 AG	214-470	GT	AGG
(TGA)	 AG	505-560	TC	AAT
-recovered GeneMark_model.106527_t, terminal, 505, 560
-recovered GeneMark_model.106527_t, internal, 214, 470
Valid prediction for CodingQuarry_transcript_62321-T1
Valid prediction for GlimmerHMM_glimmerT_61267-T1
Valid prediction for Augustus_model.g40759.t1

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

-building trellis in range 1 - 17025
-exon list size: 64


building trellis

1.5    
3.0    
4.5    
6.1    
7.6    
9.1    
10.6    
12.1    
13.6    
15.2    
16.7    
18.2    
19.7    
21.2    
22.7    
24.2    
25.8    
27.3    
28.8    
30.3    
31.8    
33.3    
34.8    
36.4    
37.9    
39.4    
40.9    
42.4    
43.9    
45.5    
47.0    
48.5    
50.0    
51.5    
53.0    
54.5    
56.1    
57.6    
59.1    
60.6    
62.1    
63.6    
65.2    
66.7    
68.2    
69.7    
71.2    
72.7    
74.2    
75.8    
77.3    
78.8    
80.3    
81.8    
83.3    
84.8    
86.4    
87.9    
89.4    
90.9    
92.4    
93.9    
95.5    
97.0    
98.5    
-found 6 predictions from path traversal
GOT 5prime partial gene.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 4 predictions persist after filtering for low support