-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_501

-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 5436, 5508
Sorry, prediction snap_scaffold_501-snap.1-T1 fails validation.
(ATG)	 GG	11-203	GT	AGG
(ATA)	 AG	1995-2328	GT	TTG
(GCT)	 AG	3478-3670	GT	TGG
(GAG)	 AG	3685-3796	GT	TGG
(AGT)	 AG	5436-5508	GT	ATG
-recovered snap_scaffold_501-snap.1-T1, initial, 11, 203
-recovered snap_scaffold_501-snap.1-T1, internal, 1995, 2328
-recovered snap_scaffold_501-snap.1-T1, internal, 3478, 3670
-recovered snap_scaffold_501-snap.1-T1, internal, 3685, 3796
-recovered snap_scaffold_501-snap.1-T1, internal, 5436, 5508
Valid prediction for GeneMark_model.107809_t

-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 1083, 1112
Sorry, prediction GeneMark_model.107810_t fails validation.
(TGG)	 AG	1083-1112	GT	GAG
(AGA)	 AG	1144-1152	GT	GAG
(TGG)	 AG	1174-1194	GT	GAG
(AGA)	 AG	1217-1267	GT	GAG
(AAC)	 AG	1298-1349	GT	GTG
(AGA)	 AG	1387-1415	GT	GAG
(AGA)	 AG	1442-1561	GT	GGG
(TGG)	 AG	1589-1690	GT	AGG
(GAG)	 AG	1739-1822	GT	AGG
(AAG)	 AG	1881-1991	GT	GAG
(AGA)	 AG	2021-2045	GT	ATG
(CCT)	 AG	2394-3100	GT	AAG
(GCG)	 AG	3246-3299	GT	GAG
(GAG)	 AG	3326-3341	GA	GAG
-recovered GeneMark_model.107810_t, terminal, 3326, 3341
-recovered GeneMark_model.107810_t, internal, 1083, 1112
-recovered GeneMark_model.107810_t, internal, 1144, 1152
-recovered GeneMark_model.107810_t, internal, 1174, 1194
-recovered GeneMark_model.107810_t, internal, 1217, 1267
-recovered GeneMark_model.107810_t, internal, 1298, 1349
-recovered GeneMark_model.107810_t, internal, 1387, 1415
-recovered GeneMark_model.107810_t, internal, 1442, 1561
-recovered GeneMark_model.107810_t, internal, 1589, 1690
-recovered GeneMark_model.107810_t, internal, 1739, 1822
-recovered GeneMark_model.107810_t, internal, 1881, 1991
-recovered GeneMark_model.107810_t, internal, 2021, 2045
-recovered GeneMark_model.107810_t, internal, 2394, 3100
-recovered GeneMark_model.107810_t, internal, 3246, 3299
Couldn't classify 364, 420
Couldn't classify 3167, 3350
Sorry, prediction snap_scaffold_501-snap.2-T1 fails validation.
(GGC)	 AG	364-420	GT	TGG
(CCT)	 AG	2619-2918	GT	TCG
(TAG)	 AG	2968-3105	GT	TGG
(AGT)	 AG	3167-3350	GT	GTG
-recovered snap_scaffold_501-snap.2-T1, internal, 364, 420
-recovered snap_scaffold_501-snap.2-T1, internal, 2619, 2918
-recovered snap_scaffold_501-snap.2-T1, internal, 2968, 3105
-recovered snap_scaffold_501-snap.2-T1, internal, 3167, 3350
Couldn't classify 2384, 3060
Sorry, prediction GlimmerHMM_glimmerT_61928-T1 fails validation.
(CCT)	 AG	2384-3060	GT	AGG
(GAG)	 AG	6185-6222	GT	GAG
-recovered GlimmerHMM_glimmerT_61928-T1, terminal, 6185, 6222
-recovered GlimmerHMM_glimmerT_61928-T1, internal, 2384, 3060
-recovered GlimmerHMM_glimmerT_61928-T1, internal, 6185, 6222

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5508, rend_intergenic: 3084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 6433
-exon list size: 59


building trellis

1.6    
3.3    
4.9    
6.6    
8.2    
9.8    
11.5    
13.1    
14.8    
16.4    
18.0    
19.7    
21.3    
23.0    
24.6    
26.2    
27.9    
29.5    
31.1    
32.8    
34.4    
36.1    
37.7    
39.3    
41.0    
42.6    
44.3    
45.9    
47.5    
49.2    
50.8    
52.5    
54.1    
55.7    
57.4    
59.0    
60.7    
62.3    
63.9    
65.6    
67.2    
68.9    
70.5    
72.1    
73.8    
75.4    
77.0    
78.7    
80.3    
82.0    
83.6    
85.2    
86.9    
88.5    
90.2    
91.8    
93.4    
95.1    
96.7    
98.4    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 5508, rend_intergenic: 3084  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

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