-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1235

-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 555, 724
Couldn't classify 2457, 2604
Sorry, prediction Augustus_model.g40410.t1 fails validation.
(AGT)	 AG	555-724	GT	AGG
(GGT)	 AG	1913-2049	GT	CCG
(GTG)	 AG	2457-2604	GT	CTG
-recovered Augustus_model.g40410.t1, internal, 555, 724
-recovered Augustus_model.g40410.t1, internal, 1913, 2049
-recovered Augustus_model.g40410.t1, internal, 2457, 2604
Valid prediction for GlimmerHMM_glimmerT_61036-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61036-T1 555-759-terminal-1 is invalid.
Couldn't classify 555, 724
Couldn't classify 2457, 2578
Sorry, prediction snap_scaffold_1235-snap.1-T1 fails validation.
(AGT)	 AG	555-724	GT	AGG
(GGT)	 AG	1913-2049	GT	CCG
(GTG)	 AG	2457-2578	GT	GGG
-recovered snap_scaffold_1235-snap.1-T1, internal, 555, 724
-recovered snap_scaffold_1235-snap.1-T1, internal, 1913, 2049
-recovered snap_scaffold_1235-snap.1-T1, internal, 2457, 2578
Couldn't classify 2457, 2604
Sorry, prediction GlimmerHMM_glimmerT_61037-T1 fails validation.
(ATG)	 GC	1618-1627	GT	GAG
(GGT)	 AG	1913-2049	GT	CCG
(GTG)	 AG	2457-2604	GT	CTG
-recovered GlimmerHMM_glimmerT_61037-T1, initial, 1618, 1627
-recovered GlimmerHMM_glimmerT_61037-T1, internal, 1913, 2049
-recovered GlimmerHMM_glimmerT_61037-T1, internal, 2457, 2604

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

-building trellis in range 1 - 2902
-exon list size: 5


building trellis

14.3    
28.6    
42.9    
57.1    
71.4    
85.7    
-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