-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_48

-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 snap_scaffold_48-snap.3-T1
Valid prediction for GeneMark_model.106257_t
Couldn't classify 747, 846
Sorry, prediction snap_scaffold_48-snap.1-T1 fails validation.
(ATT)	 AG	747-846	GT	CAG
(GTC)	 AG	1213-1293	GT	AGG
(GTC)	 AG	1353-1429	GC	AAG
-recovered snap_scaffold_48-snap.1-T1, terminal, 1353, 1429
-recovered snap_scaffold_48-snap.1-T1, internal, 747, 846
-recovered snap_scaffold_48-snap.1-T1, internal, 1213, 1293
-recovered snap_scaffold_48-snap.1-T1, internal, 1353, 1429
Valid prediction for GeneMark_model.106259_t
Valid prediction for Augustus_model.g40610.t1
Couldn't classify 28016, 28423
Sorry, prediction GlimmerHMM_glimmerT_61054-T1 fails validation.
(ATG)	 CG	24287-24322	GT	CAG
(ATA)	 AG	28016-28423	GT	AGG
-recovered GlimmerHMM_glimmerT_61054-T1, initial, 24287, 24322
-recovered GlimmerHMM_glimmerT_61054-T1, internal, 28016, 28423
Valid prediction for GlimmerHMM_glimmerT_61051-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61051-T1 747-981-terminal-1 is invalid.
Couldn't classify 506, 541
Sorry, prediction GeneMark_model.106256_t fails validation.
(GGG)	 AG	506-541	GT	CAG
(GAG)	 AG	786-981	CT	GAC
-recovered GeneMark_model.106256_t, terminal, 786, 981
-recovered GeneMark_model.106256_t, internal, 506, 541
Valid prediction for Augustus_model.g40608.t1

-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 Augustus_model.g40609.t1
Valid prediction for snap_scaffold_48-snap.2-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_61053-T1
Valid prediction for GlimmerHMM_glimmerT_61052-T1
Valid prediction for GeneMark_model.106258_t

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

-building trellis in range 1 - 28510
-exon list size: 37


building trellis

2.6    
5.1    
7.7    
10.3    
12.8    
15.4    
17.9    
20.5    
23.1    
25.6    
28.2    
30.8    
33.3    
35.9    
38.5    
41.0    
43.6    
46.2    
48.7    
51.3    
53.8    
56.4    
59.0    
61.5    
64.1    
66.7    
69.2    
71.8    
74.4    
76.9    
79.5    
82.1    
84.6    
87.2    
89.7    
92.3    
94.9    
97.4    
-found 5 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 5 predictions persist after filtering for low support