-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_771

-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 snap_scaffold_771-snap.1-T1
add_exon() Sorry, snap_scaffold_771-snap.1-T1 1215-1426-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_62216-T1
Couldn't classify 387, 464
Sorry, prediction Augustus_model.g41358.t1 fails validation.
(GGC)	 AG	387-464	GT	AGG
(CAA)	 AG	1215-1426	TC	GAT
-recovered Augustus_model.g41358.t1, terminal, 1215, 1426
-recovered Augustus_model.g41358.t1, internal, 387, 464

-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: -)Valid prediction for snap_scaffold_771-snap.2-T1
Couldn't classify 14, 35
Couldn't classify 3885, 3905
Sorry, prediction GeneMark_model.108349_t fails validation.
(AGA)	 AG	14-35	GT	AGG
(AGA)	 AG	60-77	GT	AGG
(ACA)	 AG	127-132	GT	AGG
(AGA)	 AG	157-162	GT	AGG
(AGA)	 AG	210-215	GT	AGG
(AGA)	 AG	244-261	GT	AGG
(AGG)	 AG	284-307	GT	GGG
(AGA)	 AG	344-364	GT	GAG
(GGC)	 AG	445-519	GT	AAG
(ATG)	 AG	603-680	GT	AAG
(ACA)	 AG	729-821	GT	CAG
(GGA)	 AG	845-913	GT	GAG
(GAA)	 AG	937-1047	GC	AGG
(AGA)	 AG	1071-1127	GT	GTG
(AGA)	 AG	1181-1219	GT	AAG
(ACT)	 AG	1754-1795	GT	GAG
(GGT)	 AG	1936-1953	GT	ATG
(AGA)	 AG	2211-2219	GT	GGG
(GAC)	 AG	2256-2291	GT	AAG
(AGA)	 AG	2315-2350	GT	AAG
(GGA)	 AG	2395-2442	GT	GAG
(GGA)	 AG	2465-2479	GT	AGG
(GGG)	 AG	2501-2512	GT	GGG
(GTG)	 AG	2534-2545	GT	GGG
(AAC)	 AG	2579-2587	GT	GAG
(GCA)	 AG	2610-2648	GT	GTG
(TCG)	 AG	3163-3291	GT	AGG
(GTG)	 AG	3375-3581	GT	AGG
(GGA)	 AG	3610-3630	GT	GGG
(AGG)	 AG	3654-3677	GT	GGG
(AGG)	 AG	3716-3745	GT	AGG
(AGA)	 AG	3885-3905	GT	ACG
-recovered GeneMark_model.108349_t, initial, 603, 680
add_exon() Sorry, GeneMark_model.108349_t 937-1047-terminal-1 is invalid.
-recovered GeneMark_model.108349_t, terminal, 937, 1047
-recovered GeneMark_model.108349_t, terminal, 1181, 1219
-recovered GeneMark_model.108349_t, internal, 14, 35
-recovered GeneMark_model.108349_t, internal, 60, 77
-recovered GeneMark_model.108349_t, internal, 127, 132
-recovered GeneMark_model.108349_t, internal, 157, 162
-recovered GeneMark_model.108349_t, internal, 210, 215
-recovered GeneMark_model.108349_t, internal, 244, 261
-recovered GeneMark_model.108349_t, internal, 284, 307
-recovered GeneMark_model.108349_t, internal, 344, 364
-recovered GeneMark_model.108349_t, internal, 445, 519
-recovered GeneMark_model.108349_t, internal, 603, 680
-recovered GeneMark_model.108349_t, internal, 729, 821
-recovered GeneMark_model.108349_t, internal, 845, 913
-recovered GeneMark_model.108349_t, internal, 937, 1047
-recovered GeneMark_model.108349_t, internal, 1071, 1127
-recovered GeneMark_model.108349_t, internal, 1181, 1219
-recovered GeneMark_model.108349_t, internal, 1754, 1795
-recovered GeneMark_model.108349_t, internal, 1936, 1953
-recovered GeneMark_model.108349_t, internal, 2211, 2219
-recovered GeneMark_model.108349_t, internal, 2256, 2291
-recovered GeneMark_model.108349_t, internal, 2315, 2350
-recovered GeneMark_model.108349_t, internal, 2395, 2442
-recovered GeneMark_model.108349_t, internal, 2465, 2479
-recovered GeneMark_model.108349_t, internal, 2501, 2512
-recovered GeneMark_model.108349_t, internal, 2534, 2545
-recovered GeneMark_model.108349_t, internal, 2579, 2587
-recovered GeneMark_model.108349_t, internal, 2610, 2648
-recovered GeneMark_model.108349_t, internal, 3163, 3291
-recovered GeneMark_model.108349_t, internal, 3375, 3581
-recovered GeneMark_model.108349_t, internal, 3610, 3630
-recovered GeneMark_model.108349_t, internal, 3654, 3677
-recovered GeneMark_model.108349_t, internal, 3716, 3745
-recovered GeneMark_model.108349_t, internal, 3885, 3905
Valid prediction for GlimmerHMM_glimmerT_62217-T1

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

-building trellis in range 1 - 4563
-exon list size: 84


building trellis

1.2    
2.3    
3.5    
4.7    
5.8    
7.0    
8.1    
9.3    
10.5    
11.6    
12.8    
14.0    
15.1    
16.3    
17.4    
18.6    
19.8    
20.9    
22.1    
23.3    
24.4    
25.6    
26.7    
27.9    
29.1    
30.2    
31.4    
32.6    
33.7    
34.9    
36.0    
37.2    
38.4    
39.5    
40.7    
41.9    
43.0    
44.2    
45.3    
46.5    
47.7    
48.8    
50.0    
51.2    
52.3    
53.5    
54.7    
55.8    
57.0    
58.1    
59.3    
60.5    
61.6    
62.8    
64.0    
65.1    
66.3    
67.4    
68.6    
69.8    
70.9    
72.1    
73.3    
74.4    
75.6    
76.7    
77.9    
79.1    
80.2    
81.4    
82.6    
83.7    
84.9    
86.0    
87.2    
88.4    
89.5    
90.7    
91.9    
93.0    
94.2    
95.3    
96.5    
97.7    
98.8    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support