-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_3294

-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 541, 546
Couldn't classify 744, 1010
Sorry, prediction GeneMark_model.110927_t fails validation.
(GAG)	 AG	541-546	GT	AGG
(AGG)	 AG	570-620	GT	GAG
(GAA)	 AG	643-690	GT	GAG
(TGA)	 AG	712-720	GT	GAG
(AAG)	 AG	744-1010	GT	GAG
-recovered GeneMark_model.110927_t, internal, 541, 546
-recovered GeneMark_model.110927_t, internal, 570, 620
-recovered GeneMark_model.110927_t, internal, 643, 690
-recovered GeneMark_model.110927_t, internal, 712, 720
-recovered GeneMark_model.110927_t, internal, 744, 1010
Valid prediction for snap_scaffold_3294-snap.2-T1
add_exon() Sorry, snap_scaffold_3294-snap.2-T1 707-1034-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: -)Couldn't classify 619, 702
Couldn't classify 808, 907
Sorry, prediction snap_scaffold_3294-snap.1-T1 fails validation.
(GGC)	 AG	619-702	GT	AGG
(ATG)	 AG	808-907	GT	AGG
-recovered snap_scaffold_3294-snap.1-T1, initial, 808, 907
-recovered snap_scaffold_3294-snap.1-T1, internal, 619, 702
-recovered snap_scaffold_3294-snap.1-T1, internal, 808, 907
Couldn't classify 619, 702
Sorry, prediction GlimmerHMM_glimmerT_63338-T1 fails validation.
(GGC)	 AG	619-702	GT	AGG
(ATG)	 AG	808-918	CA	GAC
-recovered GlimmerHMM_glimmerT_63338-T1, terminal, 808, 918
-recovered GlimmerHMM_glimmerT_63338-T1, internal, 619, 702
Couldn't classify 808, 907
Sorry, prediction Augustus_model.g42311.t1 fails validation.
(ATG)	 AG	598-702	GT	AGG
(ATG)	 AG	808-907	GT	AGG
-recovered Augustus_model.g42311.t1, initial, 598, 702
-recovered Augustus_model.g42311.t1, initial, 808, 907
-recovered Augustus_model.g42311.t1, internal, 598, 702
-recovered Augustus_model.g42311.t1, internal, 808, 907

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

-building trellis in range 1 - 1037
-exon list size: 21


building trellis

4.3    
8.7    
13.0    
17.4    
21.7    
26.1    
30.4    
34.8    
39.1    
43.5    
47.8    
52.2    
56.5    
60.9    
65.2    
69.6    
73.9    
78.3    
82.6    
87.0    
91.3    
95.7    
-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