-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1351

-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 1548, 1693
Sorry, prediction GlimmerHMM_glimmerT_62602-T1 fails validation.
(ATG)	 AG	913-994	GT	TGG
(GTG)	 AG	1548-1693	GT	AGG
-recovered GlimmerHMM_glimmerT_62602-T1, initial, 913, 994
-recovered GlimmerHMM_glimmerT_62602-T1, internal, 913, 994
-recovered GlimmerHMM_glimmerT_62602-T1, internal, 1548, 1693
Couldn't classify 2499, 2593
Sorry, prediction GeneMark_model.109241_t fails validation.
(ATG)	 AA	1354-1360	GT	TGG
(GAG)	 AG	1581-1693	GT	AGG
(CTT)	 AG	2162-2172	GT	AAG
(CAG)	 AG	2391-2414	GT	CAG
(GTT)	 AG	2499-2593	GC	CAG
-recovered GeneMark_model.109241_t, initial, 1354, 1360
-recovered GeneMark_model.109241_t, internal, 1581, 1693
-recovered GeneMark_model.109241_t, internal, 2162, 2172
-recovered GeneMark_model.109241_t, internal, 2391, 2414
-recovered GeneMark_model.109241_t, internal, 2499, 2593
Valid prediction for GlimmerHMM_glimmerT_62601-T1
Couldn't classify 246, 374
Couldn't classify 2098, 2414
Sorry, prediction snap_scaffold_1351-snap.1-T1 fails validation.
(GTG)	 AG	246-374	GT	AGG
(AGA)	 AG	911-1052	GT	AGG
(GAG)	 AG	1581-1688	GT	CAG
(CTC)	 AG	2098-2414	GT	CAG
-recovered snap_scaffold_1351-snap.1-T1, terminal, 911, 1052
-recovered snap_scaffold_1351-snap.1-T1, internal, 246, 374
-recovered snap_scaffold_1351-snap.1-T1, internal, 911, 1052
-recovered snap_scaffold_1351-snap.1-T1, internal, 1581, 1688
-recovered snap_scaffold_1351-snap.1-T1, internal, 2098, 2414
Couldn't classify 246, 387
Sorry, prediction Augustus_model.g41632.t1 fails validation.
(GTG)	 AG	246-387	GT	GGG
(AGC)	 AG	924-1052	GT	AGG
(GAG)	 AG	1581-1693	GT	AGG
(AAT)	 AG	1869-1880	CT	GAC
-recovered Augustus_model.g41632.t1, terminal, 924, 1052
-recovered Augustus_model.g41632.t1, terminal, 1869, 1880
-recovered Augustus_model.g41632.t1, internal, 246, 387
-recovered Augustus_model.g41632.t1, internal, 924, 1052
-recovered Augustus_model.g41632.t1, internal, 1581, 1693

-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 2518, 2568
Sorry, prediction GeneMark_model.109240_t fails validation.
(ATG)	 TC	1569-1642	GT	GAG
(AAG)	 AG	2162-2204	GT	TGG
(GCC)	 AG	2330-2424	GT	GGG
(GGA)	 AG	2458-2463	GT	AGG
(ATA)	 AG	2488-2493	GT	AGG
(AGA)	 AG	2518-2568	GT	AAG
-recovered GeneMark_model.109240_t, initial, 1569, 1642
-recovered GeneMark_model.109240_t, terminal, 2488, 2493
-recovered GeneMark_model.109240_t, internal, 2162, 2204
-recovered GeneMark_model.109240_t, internal, 2330, 2424
-recovered GeneMark_model.109240_t, internal, 2458, 2463
-recovered GeneMark_model.109240_t, internal, 2488, 2493
-recovered GeneMark_model.109240_t, internal, 2518, 2568

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

-building trellis in range 1 - 2601
-exon list size: 35


building trellis

2.7    
5.4    
8.1    
10.8    
13.5    
16.2    
18.9    
21.6    
24.3    
27.0    
29.7    
32.4    
35.1    
37.8    
40.5    
43.2    
45.9    
48.6    
51.4    
54.1    
56.8    
59.5    
62.2    
64.9    
67.6    
70.3    
73.0    
75.7    
78.4    
81.1    
83.8    
86.5    
89.2    
91.9    
94.6    
97.3    
-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