-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1111

-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 338, 419
Couldn't classify 2836, 2906
Sorry, prediction GeneMark_model.108909_t fails validation.
(AAA)	 AG	338-419	GT	AGG
(GAT)	 AG	515-771	GT	CAG
(AGA)	 AG	795-875	GT	AGG
(GCA)	 AG	914-979	GT	GGG
(GGT)	 AG	1007-1021	GT	GGG
(GGC)	 AG	1058-1183	GT	GAG
(GGG)	 AG	1219-1365	GT	GAG
(AGG)	 AG	1444-1554	GT	GAG
(CTC)	 AG	1764-1946	GT	GAG
(AGG)	 AG	1979-2104	GT	GAG
(AGA)	 AG	2129-2155	GT	AAG
(GGA)	 AG	2836-2906	GT	TTG
add_exon() Sorry, GeneMark_model.108909_t 1219-1365-terminal-1 is invalid.
-recovered GeneMark_model.108909_t, terminal, 1219, 1365
-recovered GeneMark_model.108909_t, internal, 338, 419
-recovered GeneMark_model.108909_t, internal, 515, 771
-recovered GeneMark_model.108909_t, internal, 795, 875
-recovered GeneMark_model.108909_t, internal, 914, 979
-recovered GeneMark_model.108909_t, internal, 1007, 1021
-recovered GeneMark_model.108909_t, internal, 1058, 1183
-recovered GeneMark_model.108909_t, internal, 1219, 1365
-recovered GeneMark_model.108909_t, internal, 1444, 1554
-recovered GeneMark_model.108909_t, internal, 1764, 1946
-recovered GeneMark_model.108909_t, internal, 1979, 2104
-recovered GeneMark_model.108909_t, internal, 2129, 2155
-recovered GeneMark_model.108909_t, internal, 2836, 2906
Valid prediction for snap_scaffold_1111-snap.2-T1

-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 1330, 1498
Couldn't classify 2845, 2875
Sorry, prediction Augustus_model.g41532.t1 fails validation.
(AAC)	 AG	1330-1498	GT	GGG
(GCC)	 AG	1851-1934	GT	AGG
(GGT)	 AG	2680-2705	GT	GTG
(CCT)	 AG	2845-2875	GT	AGG
-recovered Augustus_model.g41532.t1, internal, 1330, 1498
-recovered Augustus_model.g41532.t1, internal, 1851, 1934
-recovered Augustus_model.g41532.t1, internal, 2680, 2705
-recovered Augustus_model.g41532.t1, internal, 2845, 2875
Couldn't classify 1330, 1498
Sorry, prediction GlimmerHMM_glimmerT_62471-T1 fails validation.
(AAC)	 AG	1330-1498	GT	GGG
(GCC)	 AG	1851-1939	TC	AGT
-recovered GlimmerHMM_glimmerT_62471-T1, terminal, 1851, 1939
-recovered GlimmerHMM_glimmerT_62471-T1, internal, 1330, 1498
Couldn't classify 1330, 1498
Couldn't classify 2680, 2801
Sorry, prediction snap_scaffold_1111-snap.1-T1 fails validation.
(AAC)	 AG	1330-1498	GT	GGG
(GCC)	 AG	1851-1934	GT	AGG
(GGT)	 AG	2680-2801	GT	CGG
-recovered snap_scaffold_1111-snap.1-T1, internal, 1330, 1498
-recovered snap_scaffold_1111-snap.1-T1, internal, 1851, 1934
-recovered snap_scaffold_1111-snap.1-T1, internal, 2680, 2801

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

-building trellis in range 1 - 3257
-exon list size: 34


building trellis

2.8    
5.6    
8.3    
11.1    
13.9    
16.7    
19.4    
22.2    
25.0    
27.8    
30.6    
33.3    
36.1    
38.9    
41.7    
44.4    
47.2    
50.0    
52.8    
55.6    
58.3    
61.1    
63.9    
66.7    
69.4    
72.2    
75.0    
77.8    
80.6    
83.3    
86.1    
88.9    
91.7    
94.4    
97.2    
-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