-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1089

-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 2732, 3124
Sorry, prediction snap_scaffold_1089-snap.1-T1 fails validation.
(ATG)	 AC	470-562	GT	ATG
(ACG)	 AG	719-775	GT	AGG
(GCC)	 AG	847-1024	GT	CTG
(ACC)	 AG	1424-1736	GT	GAG
(GGT)	 AG	1825-1930	GT	TGG
(GCC)	 AG	2108-2126	GT	GGG
(AAG)	 AG	2324-2617	GT	GAG
(GGT)	 AG	2732-3124	GT	AGG
-recovered snap_scaffold_1089-snap.1-T1, initial, 470, 562
add_exon() Sorry, snap_scaffold_1089-snap.1-T1 1424-1736-terminal-3 is invalid.
-recovered snap_scaffold_1089-snap.1-T1, terminal, 1424, 1736
-recovered snap_scaffold_1089-snap.1-T1, internal, 719, 775
-recovered snap_scaffold_1089-snap.1-T1, internal, 847, 1024
-recovered snap_scaffold_1089-snap.1-T1, internal, 1424, 1736
-recovered snap_scaffold_1089-snap.1-T1, internal, 1825, 1930
-recovered snap_scaffold_1089-snap.1-T1, internal, 2108, 2126
-recovered snap_scaffold_1089-snap.1-T1, internal, 2324, 2617
-recovered snap_scaffold_1089-snap.1-T1, internal, 2732, 3124
Valid prediction for GlimmerHMM_glimmerT_60955-T1
Couldn't classify 1, 78
Couldn't classify 2732, 3124
Sorry, prediction Augustus_model.g40345.t1 fails validation.
(CCC)	 GG	1-78	GT	GGG
(ACA)	 AG	375-562	GT	ATG
(ACG)	 AG	719-775	GT	AGG
(GCC)	 AG	847-1024	GT	CTG
(ACC)	 AG	1424-1736	GT	GAG
(GGT)	 AG	1825-1930	GT	TGG
(GCC)	 AG	2108-2126	GT	GGG
(AAG)	 AG	2324-2617	GT	GAG
(GGT)	 AG	2732-3124	GT	AGG
add_exon() Sorry, Augustus_model.g40345.t1 1424-1736-terminal-3 is invalid.
-recovered Augustus_model.g40345.t1, terminal, 1424, 1736
-recovered Augustus_model.g40345.t1, internal, 375, 562
-recovered Augustus_model.g40345.t1, internal, 719, 775
-recovered Augustus_model.g40345.t1, internal, 847, 1024
-recovered Augustus_model.g40345.t1, internal, 1424, 1736
-recovered Augustus_model.g40345.t1, internal, 1825, 1930
-recovered Augustus_model.g40345.t1, internal, 2108, 2126
-recovered Augustus_model.g40345.t1, internal, 2324, 2617
-recovered Augustus_model.g40345.t1, internal, 2732, 3124
Couldn't classify 2732, 3124
Sorry, prediction GlimmerHMM_glimmerT_60956-T1 fails validation.
(ATG)	 TC	1181-1210	GT	AGG
(CCA)	 AG	1459-1732	GT	CTG
(CTC)	 AG	2327-2617	GT	GAG
(GGT)	 AG	2732-3124	GT	AGG
-recovered GlimmerHMM_glimmerT_60956-T1, initial, 1181, 1210
-recovered GlimmerHMM_glimmerT_60956-T1, internal, 1459, 1732
-recovered GlimmerHMM_glimmerT_60956-T1, internal, 2327, 2617
-recovered GlimmerHMM_glimmerT_60956-T1, internal, 2732, 3124

-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 - 3322
-exon list size: 18


building trellis

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10.0    
15.0    
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25.0    
30.0    
35.0    
40.0    
45.0    
50.0    
55.0    
60.0    
65.0    
70.0    
75.0    
80.0    
85.0    
90.0    
95.0    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support