-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1288

-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 205, 291
Sorry, prediction GeneMark_model.109152_t fails validation.
(ACT)	 AG	205-291	GT	AAG
(ACA)	 AG	395-542	GG	GAG
-recovered GeneMark_model.109152_t, terminal, 395, 542
-recovered GeneMark_model.109152_t, internal, 205, 291

-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 170, 198
Couldn't classify 2394, 2566
Sorry, prediction Augustus_model.g41609.t1 fails validation.
(AGC)	 AG	170-198	GT	TGG
(ATG)	 AG	1984-2145	GT	AGG
(GGA)	 AG	2394-2566	GT	CGG
-recovered Augustus_model.g41609.t1, initial, 1984, 2145
-recovered Augustus_model.g41609.t1, internal, 170, 198
-recovered Augustus_model.g41609.t1, internal, 1984, 2145
-recovered Augustus_model.g41609.t1, internal, 2394, 2566
Couldn't classify 170, 198
Couldn't classify 2394, 2566
Sorry, prediction snap_scaffold_1288-snap.1-T1 fails validation.
(AGC)	 AG	170-198	GT	TGG
(ATG)	 AG	1984-2145	GT	AGG
(GGA)	 AG	2394-2566	GT	CGG
-recovered snap_scaffold_1288-snap.1-T1, initial, 1984, 2145
-recovered snap_scaffold_1288-snap.1-T1, internal, 170, 198
-recovered snap_scaffold_1288-snap.1-T1, internal, 1984, 2145
-recovered snap_scaffold_1288-snap.1-T1, internal, 2394, 2566
Valid prediction for GlimmerHMM_glimmerT_62561-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62561-T1 2394-2611-terminal-1 is invalid.
Couldn't classify 170, 198
Sorry, prediction GeneMark_model.109153_t fails validation.
(AGC)	 AG	170-198	GT	TGG
(GCA)	 AG	559-564	GT	AGG
(AAA)	 AG	590-694	GT	GGG
(AGG)	 AG	716-742	GT	GGG
(GGA)	 AG	766-813	GT	GGG
(GGA)	 AG	838-849	GT	GAG
(AGG)	 AG	886-1017	GT	GAG
(GGC)	 AG	1049-1095	GT	GAG
(ATG)	 AG	1984-2098	GT	GTG
(CTT)	 AG	2169-2178	AG	AAA
-recovered GeneMark_model.109153_t, initial, 1984, 2098
-recovered GeneMark_model.109153_t, terminal, 838, 849
-recovered GeneMark_model.109153_t, terminal, 2169, 2178
-recovered GeneMark_model.109153_t, internal, 170, 198
-recovered GeneMark_model.109153_t, internal, 559, 564
-recovered GeneMark_model.109153_t, internal, 590, 694
-recovered GeneMark_model.109153_t, internal, 716, 742
-recovered GeneMark_model.109153_t, internal, 766, 813
-recovered GeneMark_model.109153_t, internal, 838, 849
-recovered GeneMark_model.109153_t, internal, 886, 1017
-recovered GeneMark_model.109153_t, internal, 1049, 1095
-recovered GeneMark_model.109153_t, internal, 1984, 2098
Couldn't classify 1983, 2145
Couldn't classify 2394, 2539
Sorry, prediction pasa_asmbl_9257.p1 fails validation.
(GAT)	 CA	1983-2145	GT	AGG
(GGA)	 AG	2394-2539	AT	AGA

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

-building trellis in range 1 - 2752
-exon list size: 31


building trellis

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72.7    
75.8    
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81.8    
84.8    
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97.0    
-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