-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1227

-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 35, 93
Sorry, prediction snap_scaffold_1227-snap.1-T1 fails validation.
(GGT)	 AG	35-93	GT	AGG
(GCA)	 AG	2238-2296	GT	GGG
(TAG)	 AG	2436-2503	GT	GGG
(GAA)	 AG	2765-2838	TT	AAT
-recovered snap_scaffold_1227-snap.1-T1, terminal, 2765, 2838
-recovered snap_scaffold_1227-snap.1-T1, internal, 35, 93
-recovered snap_scaffold_1227-snap.1-T1, internal, 2238, 2296
-recovered snap_scaffold_1227-snap.1-T1, internal, 2436, 2503
Couldn't classify 35, 128
Sorry, prediction GeneMark_model.109057_t fails validation.
(GGT)	 AG	35-128	GT	CAG
(CAG)	 AG	646-696	GT	GAG
(GAT)	 AG	717-728	GT	GTG
(TTG)	 AG	757-828	GT	AGG
(TTG)	 AG	874-879	GT	GTG
(GGG)	 AG	904-912	GT	AGG
(CAG)	 AG	936-1008	CA	AGC
-recovered GeneMark_model.109057_t, terminal, 936, 1008
-recovered GeneMark_model.109057_t, internal, 35, 128
-recovered GeneMark_model.109057_t, internal, 646, 696
-recovered GeneMark_model.109057_t, internal, 717, 728
-recovered GeneMark_model.109057_t, internal, 757, 828
-recovered GeneMark_model.109057_t, internal, 874, 879
-recovered GeneMark_model.109057_t, internal, 904, 912
Couldn't classify 2439, 2553
Sorry, prediction GeneMark_model.109058_t fails validation.
(ATG)	 TA	1066-1449	GT	CTG
(GGA)	 AG	2098-2138	GT	GGG
(CCC)	 AG	2210-2242	GT	GAG
(CCC)	 AG	2264-2296	GT	GGG
(CCC)	 AG	2318-2350	GT	GGG
(AGG)	 AG	2439-2553	GT	TCG
-recovered GeneMark_model.109058_t, initial, 1066, 1449
-recovered GeneMark_model.109058_t, internal, 2098, 2138
-recovered GeneMark_model.109058_t, internal, 2210, 2242
-recovered GeneMark_model.109058_t, internal, 2264, 2296
-recovered GeneMark_model.109058_t, internal, 2318, 2350
-recovered GeneMark_model.109058_t, internal, 2439, 2553

-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 2828, 2886
Sorry, prediction snap_scaffold_1227-snap.2-T1 fails validation.
(ATG)	 AC	292-398	GT	AGG
(TAT)	 AG	928-991	GT	GGG
(GGG)	 AG	1352-1412	GT	GGG
(CTG)	 AG	2828-2886	GT	GGG
-recovered snap_scaffold_1227-snap.2-T1, initial, 292, 398
-recovered snap_scaffold_1227-snap.2-T1, internal, 928, 991
-recovered snap_scaffold_1227-snap.2-T1, internal, 1352, 1412
-recovered snap_scaffold_1227-snap.2-T1, internal, 2828, 2886

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2838, rend_intergenic: 40  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 2925
-exon list size: 41


building trellis

2.3    
4.7    
7.0    
9.3    
11.6    
14.0    
16.3    
18.6    
20.9    
23.3    
25.6    
27.9    
30.2    
32.6    
34.9    
37.2    
39.5    
41.9    
44.2    
46.5    
48.8    
51.2    
53.5    
55.8    
58.1    
60.5    
62.8    
65.1    
67.4    
69.8    
72.1    
74.4    
76.7    
79.1    
81.4    
83.7    
86.0    
88.4    
90.7    
93.0    
95.3    
97.7    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2838, rend_intergenic: 40  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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