-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1691

-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 539, 672
Couldn't classify 1079, 1229
Sorry, prediction snap_scaffold_1691-snap.1-T1 fails validation.
(CTT)	 AG	539-672	GT	AAG
(ATG)	 AG	1079-1229	GT	AGG
add_exon() Sorry, snap_scaffold_1691-snap.1-T1 1079-1229-initial-1 is invalid.
-recovered snap_scaffold_1691-snap.1-T1, initial, 1079, 1229
-recovered snap_scaffold_1691-snap.1-T1, internal, 539, 672
-recovered snap_scaffold_1691-snap.1-T1, internal, 1079, 1229
Couldn't classify 560, 643
Couldn't classify 1969, 1996
Sorry, prediction GeneMark_model.109623_t fails validation.
(GAA)	 AG	560-643	GT	GAG
(GGA)	 AG	747-770	GT	GGG
(GGA)	 AG	813-839	GT	GAG
(TAA)	 AG	861-875	GT	GAG
(ACG)	 AG	914-934	GT	AGG
(GAC)	 AG	1032-1229	GT	AGG
(AGA)	 AG	1398-1572	GC	GAG
(GGA)	 AG	1590-1768	GT	GAG
(AGG)	 AG	1969-1996	GC	GAG
-recovered GeneMark_model.109623_t, terminal, 560, 643
-recovered GeneMark_model.109623_t, internal, 560, 643
-recovered GeneMark_model.109623_t, internal, 747, 770
-recovered GeneMark_model.109623_t, internal, 813, 839
-recovered GeneMark_model.109623_t, internal, 861, 875
-recovered GeneMark_model.109623_t, internal, 914, 934
-recovered GeneMark_model.109623_t, internal, 1032, 1229
-recovered GeneMark_model.109623_t, internal, 1398, 1572
-recovered GeneMark_model.109623_t, internal, 1590, 1768
-recovered GeneMark_model.109623_t, internal, 1969, 1996

-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: -)Couldn't classify 845, 1002
Couldn't classify 1510, 1626
Sorry, prediction Augustus_model.g41788.t1 fails validation.
(GTT)	 AG	845-1002	GT	ATG
(CTG)	 AG	1510-1626	GT	TGG
-recovered Augustus_model.g41788.t1, internal, 845, 1002
-recovered Augustus_model.g41788.t1, internal, 1510, 1626
Valid prediction for GlimmerHMM_glimmerT_62778-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62778-T1 845-1085-terminal-1 is invalid.

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

-building trellis in range 1 - 2047
-exon list size: 26


building trellis

3.6    
7.1    
10.7    
14.3    
17.9    
21.4    
25.0    
28.6    
32.1    
35.7    
39.3    
42.9    
46.4    
50.0    
53.6    
57.1    
60.7    
64.3    
67.9    
71.4    
75.0    
78.6    
82.1    
85.7    
89.3    
92.9    
96.4    
-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