-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1400

-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 482, 496
Couldn't classify 2466, 2472
Sorry, prediction GeneMark_model.109295_t fails validation.
(AGA)	 AG	482-496	GT	GGG
(AGA)	 AG	526-543	GT	AGG
(AGG)	 AG	598-606	GT	GGG
(AAA)	 AG	640-660	GT	GGG
(AGA)	 AG	686-697	GT	AGG
(AGG)	 AG	1642-1650	GT	GGG
(AGA)	 AG	1674-1703	GT	GGG
(AGG)	 AG	1767-1775	GT	GGG
(AGC)	 AG	1799-1837	GT	GGG
(AGA)	 AG	1869-1889	GT	GGG
(GGA)	 AG	1925-1933	GT	GGG
(ACG)	 AG	2011-2019	GT	GGG
(AGA)	 AG	2070-2096	GT	GGG
(AGG)	 AG	2130-2138	GT	GGG
(AGA)	 AG	2190-2201	GT	GGG
(AGA)	 AG	2231-2239	GT	GGG
(GTT)	 AG	2289-2294	GT	GGG
(AGA)	 AG	2326-2337	GT	AGG
(AGA)	 AG	2428-2436	GT	GGG
(AGG)	 AG	2466-2472	GT	GGG
add_exon() Sorry, GeneMark_model.109295_t 2326-2337-terminal-1 is invalid.
-recovered GeneMark_model.109295_t, terminal, 2326, 2337
-recovered GeneMark_model.109295_t, internal, 482, 496
-recovered GeneMark_model.109295_t, internal, 526, 543
-recovered GeneMark_model.109295_t, internal, 598, 606
-recovered GeneMark_model.109295_t, internal, 640, 660
-recovered GeneMark_model.109295_t, internal, 686, 697
-recovered GeneMark_model.109295_t, internal, 1642, 1650
-recovered GeneMark_model.109295_t, internal, 1674, 1703
-recovered GeneMark_model.109295_t, internal, 1767, 1775
-recovered GeneMark_model.109295_t, internal, 1799, 1837
-recovered GeneMark_model.109295_t, internal, 1869, 1889
-recovered GeneMark_model.109295_t, internal, 1925, 1933
-recovered GeneMark_model.109295_t, internal, 2011, 2019
-recovered GeneMark_model.109295_t, internal, 2070, 2096
-recovered GeneMark_model.109295_t, internal, 2130, 2138
-recovered GeneMark_model.109295_t, internal, 2190, 2201
-recovered GeneMark_model.109295_t, internal, 2231, 2239
-recovered GeneMark_model.109295_t, internal, 2289, 2294
-recovered GeneMark_model.109295_t, internal, 2326, 2337
-recovered GeneMark_model.109295_t, internal, 2428, 2436
-recovered GeneMark_model.109295_t, internal, 2466, 2472

-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 - 2500
-exon list size: 52


building trellis

1.9    
3.7    
5.6    
7.4    
9.3    
11.1    
13.0    
14.8    
16.7    
18.5    
20.4    
22.2    
24.1    
25.9    
27.8    
29.6    
31.5    
33.3    
35.2    
37.0    
38.9    
40.7    
42.6    
44.4    
46.3    
48.1    
50.0    
51.9    
53.7    
55.6    
57.4    
59.3    
61.1    
63.0    
64.8    
66.7    
68.5    
70.4    
72.2    
74.1    
75.9    
77.8    
79.6    
81.5    
83.3    
85.2    
87.0    
88.9    
90.7    
92.6    
94.4    
96.3    
98.1    
-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