-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_3138

-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_63297-T1
add_exon() Sorry, GlimmerHMM_glimmerT_63297-T1 457-647-terminal-1 is invalid.
Couldn't classify 962, 1036
Sorry, prediction GeneMark_model.110830_t fails validation.
(ATG)	 AG	519-556	GT	GGG
(TCT)	 AG	585-635	GT	ACG
(ACA)	 AG	754-783	GT	GGG
(AGA)	 AG	876-887	GT	GGG
(TGG)	 AG	914-940	GT	GAG
(AGT)	 AG	962-1036	GT	GTG
-recovered GeneMark_model.110830_t, initial, 519, 556
-recovered GeneMark_model.110830_t, internal, 519, 556
-recovered GeneMark_model.110830_t, internal, 585, 635
-recovered GeneMark_model.110830_t, internal, 754, 783
-recovered GeneMark_model.110830_t, internal, 876, 887
-recovered GeneMark_model.110830_t, internal, 914, 940
-recovered GeneMark_model.110830_t, internal, 962, 1036
Valid prediction for Augustus_model.g42272.t1
add_exon() Sorry, Augustus_model.g42272.t1 457-647-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 440, 794
Sorry, prediction snap_scaffold_3138-snap.1-T1 fails validation.
(CAC)	 AG	440-794	GT	AGG
-recovered snap_scaffold_3138-snap.1-T1, internal, 440, 794
Couldn't classify 1002, 1046
Sorry, prediction GeneMark_model.110829_t fails validation.
(ATG)	 AG	648-697	GT	GAG
(AGT)	 AG	731-799	GT	CAG
(TTA)	 AG	1002-1046	GC	GAG
-recovered GeneMark_model.110829_t, initial, 648, 697
-recovered GeneMark_model.110829_t, internal, 648, 697
-recovered GeneMark_model.110829_t, internal, 731, 799
-recovered GeneMark_model.110829_t, internal, 1002, 1046

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

-building trellis in range 1 - 1062
-exon list size: 23


building trellis

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32.0    
36.0    
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44.0    
48.0    
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56.0    
60.0    
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80.0    
84.0    
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92.0    
96.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support