-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_973

-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 3639, 3746
Sorry, prediction GeneMark_model.108699_t fails validation.
(ATG)	 GG	2764-2898	GT	GGG
(GCT)	 AG	3393-3497	GT	CAG
(GAT)	 AG	3639-3746	GT	ATG
-recovered GeneMark_model.108699_t, initial, 2764, 2898
-recovered GeneMark_model.108699_t, internal, 3393, 3497
-recovered GeneMark_model.108699_t, internal, 3639, 3746
Couldn't classify 36, 101
Sorry, prediction GeneMark_model.108698_t fails validation.
(GGA)	 AG	36-101	GT	GAG
(GTC)	 AG	469-621	GT	AGG
(GGA)	 AG	682-714	GT	AAG
(GGG)	 AG	741-749	GT	GGG
(AGG)	 AG	773-823	GT	TTG
(GAG)	 AG	918-950	GT	GCG
(ACC)	 AG	1071-1205	GT	TCG
(TGA)	 AG	1390-1587	GT	GAG
(AGA)	 AG	1636-1677	GT	GAG
(AGC)	 AG	1893-1935	CT	GAC
-recovered GeneMark_model.108698_t, terminal, 36, 101
-recovered GeneMark_model.108698_t, terminal, 1893, 1935
-recovered GeneMark_model.108698_t, internal, 36, 101
-recovered GeneMark_model.108698_t, internal, 469, 621
-recovered GeneMark_model.108698_t, internal, 682, 714
-recovered GeneMark_model.108698_t, internal, 741, 749
-recovered GeneMark_model.108698_t, internal, 773, 823
-recovered GeneMark_model.108698_t, internal, 918, 950
-recovered GeneMark_model.108698_t, internal, 1071, 1205
-recovered GeneMark_model.108698_t, internal, 1390, 1587
-recovered GeneMark_model.108698_t, internal, 1636, 1677
Valid prediction for snap_scaffold_973-snap.2-T1

-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 290, 385
Couldn't classify 3201, 3434
Sorry, prediction snap_scaffold_973-snap.1-T1 fails validation.
(GGC)	 AG	290-385	GT	GGG
(GTA)	 AG	1889-1945	GT	CAG
(CGC)	 AG	3201-3434	GT	AGG
-recovered snap_scaffold_973-snap.1-T1, internal, 290, 385
-recovered snap_scaffold_973-snap.1-T1, internal, 1889, 1945
-recovered snap_scaffold_973-snap.1-T1, internal, 3201, 3434
Couldn't classify 290, 385
Sorry, prediction GlimmerHMM_glimmerT_62376-T1 fails validation.
(GGC)	 AG	290-385	GT	GGG
(CGC)	 AG	3201-3515	TG	AGT
-recovered GlimmerHMM_glimmerT_62376-T1, terminal, 3201, 3515
-recovered GlimmerHMM_glimmerT_62376-T1, internal, 290, 385
Couldn't classify 3201, 3434
Sorry, prediction Augustus_model.g41466.t1 fails validation.
(ATG)	 CA	1168-1183	GT	GGG
(GTA)	 AG	1889-1962	GT	AGG
(CGC)	 AG	3201-3434	GT	AGG
-recovered Augustus_model.g41466.t1, initial, 1168, 1183
-recovered Augustus_model.g41466.t1, internal, 1889, 1962
-recovered Augustus_model.g41466.t1, internal, 3201, 3434

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3469, rend_intergenic: 883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 3758
-exon list size: 38


building trellis

2.5    
5.0    
7.5    
10.0    
12.5    
15.0    
17.5    
20.0    
22.5    
25.0    
27.5    
30.0    
32.5    
35.0    
37.5    
40.0    
42.5    
45.0    
47.5    
50.0    
52.5    
55.0    
57.5    
60.0    
62.5    
65.0    
67.5    
70.0    
72.5    
75.0    
77.5    
80.0    
82.5    
85.0    
87.5    
90.0    
92.5    
95.0    
97.5    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 3469, rend_intergenic: 883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support