-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_412

-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 744, 793
Sorry, prediction GeneMark_model.107564_t fails validation.
(CGC)	 AG	744-793	GT	ACG
(GCC)	 AG	1195-1215	GT	GGG
(AGG)	 AG	1257-1271	GT	GGG
(AGG)	 AG	1329-1367	GT	GGG
(AGG)	 AG	1389-1403	GT	GGG
(AGG)	 AG	1425-1439	GT	GGG
(GGT)	 AG	1463-1479	GT	TGG
(GGT)	 AG	1523-1529	GT	GTG
(AGG)	 AG	1557-1571	GT	GGG
(AGG)	 AG	1809-1823	GT	GGG
(GGT)	 AG	1848-1853	GT	CAG
(GAT)	 AG	1874-1905	GT	TGG
(AGG)	 AG	2092-2098	GT	AAG
(AAT)	 AG	2144-2182	GT	TCG
(AGG)	 AG	2547-2582	GT	GAG
(GGA)	 AG	2765-3172	GT	AGG
(GAG)	 AG	3196-3225	GC	AAG
(AAA)	 AG	3379-3450	GT	AGG
(AGA)	 AG	3653-3896	AG	AAA
-recovered GeneMark_model.107564_t, terminal, 3653, 3896
-recovered GeneMark_model.107564_t, internal, 744, 793
-recovered GeneMark_model.107564_t, internal, 1195, 1215
-recovered GeneMark_model.107564_t, internal, 1257, 1271
-recovered GeneMark_model.107564_t, internal, 1329, 1367
-recovered GeneMark_model.107564_t, internal, 1389, 1403
-recovered GeneMark_model.107564_t, internal, 1425, 1439
-recovered GeneMark_model.107564_t, internal, 1463, 1479
-recovered GeneMark_model.107564_t, internal, 1523, 1529
-recovered GeneMark_model.107564_t, internal, 1557, 1571
-recovered GeneMark_model.107564_t, internal, 1809, 1823
-recovered GeneMark_model.107564_t, internal, 1848, 1853
-recovered GeneMark_model.107564_t, internal, 1874, 1905
-recovered GeneMark_model.107564_t, internal, 2092, 2098
-recovered GeneMark_model.107564_t, internal, 2144, 2182
-recovered GeneMark_model.107564_t, internal, 2547, 2582
-recovered GeneMark_model.107564_t, internal, 2765, 3172
-recovered GeneMark_model.107564_t, internal, 3196, 3225
-recovered GeneMark_model.107564_t, internal, 3379, 3450
Couldn't classify 6405, 6519
Sorry, prediction GlimmerHMM_glimmerT_61817-T1 fails validation.
(ATG)	 GG	1875-1924	GT	AGG
(AGA)	 AG	6405-6519	GT	GGG
-recovered GlimmerHMM_glimmerT_61817-T1, initial, 1875, 1924
-recovered GlimmerHMM_glimmerT_61817-T1, internal, 6405, 6519
Couldn't classify 2743, 3161
Couldn't classify 6405, 6519
Sorry, prediction snap_scaffold_412-snap.1-T1 fails validation.
(GAG)	 AG	2743-3161	GT	AGG
(AGA)	 AG	6405-6519	GT	GGG
-recovered snap_scaffold_412-snap.1-T1, internal, 2743, 3161
-recovered snap_scaffold_412-snap.1-T1, internal, 6405, 6519

-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 Augustus_model.g41087.t1
Valid prediction for GlimmerHMM_glimmerT_61816-T1
Couldn't classify 364, 438
Sorry, prediction GeneMark_model.107565_t fails validation.
(AGA)	 AG	364-438	GT	GAG
(TGC)	 AG	464-490	GT	GAG
(AGA)	 AG	514-558	GT	GAG
(GGA)	 AG	582-659	GT	AGG
(GGC)	 AG	720-750	AG	AAA
-recovered GeneMark_model.107565_t, terminal, 720, 750
-recovered GeneMark_model.107565_t, internal, 364, 438
-recovered GeneMark_model.107565_t, internal, 464, 490
-recovered GeneMark_model.107565_t, internal, 514, 558
-recovered GeneMark_model.107565_t, internal, 582, 659

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

-building trellis in range 1 - 7189
-exon list size: 60


building trellis

1.6    
3.2    
4.8    
6.5    
8.1    
9.7    
11.3    
12.9    
14.5    
16.1    
17.7    
19.4    
21.0    
22.6    
24.2    
25.8    
27.4    
29.0    
30.6    
32.3    
33.9    
35.5    
37.1    
38.7    
40.3    
41.9    
43.5    
45.2    
46.8    
48.4    
50.0    
51.6    
53.2    
54.8    
56.5    
58.1    
59.7    
61.3    
62.9    
64.5    
66.1    
67.7    
69.4    
71.0    
72.6    
74.2    
75.8    
77.4    
79.0    
80.6    
82.3    
83.9    
85.5    
87.1    
88.7    
90.3    
91.9    
93.5    
95.2    
96.8    
98.4    
-found 2 predictions from path traversal

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