-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1942

-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 GlimmerHMM_glimmerT_62902-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62902-T1 813-1065-terminal-1 is invalid.
Couldn't classify 813, 886
Sorry, prediction GeneMark_model.109884_t fails validation.
(CGT)	 AG	813-886	GT	AGG
(TCT)	 AG	953-963	GT	ACG
(CTG)	 AG	987-1026	GT	AGG
(AGA)	 AG	1069-1106	GC	AGG
(AGC)	 AG	1131-1178	GC	AAG
(GGA)	 AG	1232-1258	GT	GAG
(AGA)	 AG	1282-1290	GT	GAG
(GGA)	 AG	1318-1333	TG	AAT
-recovered GeneMark_model.109884_t, terminal, 1318, 1333
-recovered GeneMark_model.109884_t, internal, 813, 886
-recovered GeneMark_model.109884_t, internal, 953, 963
-recovered GeneMark_model.109884_t, internal, 987, 1026
-recovered GeneMark_model.109884_t, internal, 1069, 1106
-recovered GeneMark_model.109884_t, internal, 1131, 1178
-recovered GeneMark_model.109884_t, internal, 1232, 1258
-recovered GeneMark_model.109884_t, internal, 1282, 1290

-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 114, 171
Couldn't classify 677, 946
Sorry, prediction Augustus_model.g41885.t1 fails validation.
(TTC)	 AG	114-171	GT	AGG
(AGG)	 AG	287-369	GT	TGG
(ACG)	 AG	677-946	GT	AGG
-recovered Augustus_model.g41885.t1, internal, 114, 171
-recovered Augustus_model.g41885.t1, internal, 287, 369
-recovered Augustus_model.g41885.t1, internal, 677, 946
Couldn't classify 677, 946
Sorry, prediction snap_scaffold_1942-snap.1-T1 fails validation.
(ACG)	 AG	677-946	GT	AGG
-recovered snap_scaffold_1942-snap.1-T1, internal, 677, 946

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

-building trellis in range 1 - 1753
-exon list size: 24


building trellis

3.8    
7.7    
11.5    
15.4    
19.2    
23.1    
26.9    
30.8    
34.6    
38.5    
42.3    
46.2    
50.0    
53.8    
57.7    
61.5    
65.4    
69.2    
73.1    
76.9    
80.8    
84.6    
88.5    
92.3    
96.2    
-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