-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_582

-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: +)Valid prediction for Augustus_model.g41220.t1
Couldn't classify 5105, 5212
Sorry, prediction snap_scaffold_582-snap.2-T1 fails validation.
(ATG)	 AC	2001-2178	GT	AGG
(GGG)	 AG	2990-3027	GT	AAG
(CTG)	 AG	4666-4820	GT	CGG
(GAT)	 AG	5105-5212	GT	AGG
-recovered snap_scaffold_582-snap.2-T1, initial, 2001, 2178
-recovered snap_scaffold_582-snap.2-T1, internal, 2990, 3027
-recovered snap_scaffold_582-snap.2-T1, internal, 4666, 4820
-recovered snap_scaffold_582-snap.2-T1, internal, 5105, 5212
Couldn't classify 5105, 5212
Sorry, prediction GeneMark_model.107982_t fails validation.
(ATG)	 CC	4620-4625	GT	GTG
(CTG)	 AG	4666-4820	GT	CGG
(ACA)	 AG	4871-4876	GT	GGG
(ACA)	 AG	4907-4930	GT	GGG
(GAT)	 AG	5105-5212	GT	AGG
-recovered GeneMark_model.107982_t, initial, 4620, 4625
-recovered GeneMark_model.107982_t, internal, 4666, 4820
-recovered GeneMark_model.107982_t, internal, 4871, 4876
-recovered GeneMark_model.107982_t, internal, 4907, 4930
-recovered GeneMark_model.107982_t, internal, 5105, 5212
Couldn't classify 49, 122
Sorry, prediction GeneMark_model.107980_t fails validation.
(CCT)	 AG	49-122	GT	CGG
(GAG)	 AG	146-273	GT	GAG
(GAG)	 AG	299-307	GT	TGG
(TAG)	 AG	329-361	GT	GGG
(TGG)	 AG	383-428	GT	AGG
(CAG)	 AG	520-567	GT	AGG
(GAG)	 AG	611-672	GT	GCG
(GAG)	 AG	1056-1155	GT	AAG
(GGA)	 AG	1253-1410	GT	GGG
(TTA)	 AG	1492-1495	TA	AAT
-recovered GeneMark_model.107980_t, terminal, 1492, 1495
-recovered GeneMark_model.107980_t, internal, 49, 122
-recovered GeneMark_model.107980_t, internal, 146, 273
-recovered GeneMark_model.107980_t, internal, 299, 307
-recovered GeneMark_model.107980_t, internal, 329, 361
-recovered GeneMark_model.107980_t, internal, 383, 428
-recovered GeneMark_model.107980_t, internal, 520, 567
-recovered GeneMark_model.107980_t, internal, 611, 672
-recovered GeneMark_model.107980_t, internal, 1056, 1155
-recovered GeneMark_model.107980_t, internal, 1253, 1410
Couldn't classify 4072, 4119
Couldn't classify 5105, 5213
Sorry, prediction pasa_asmbl_46566.p1 fails validation.
(CAG)	 CT	4072-4119	GT	ACG
(CTG)	 AG	4666-4820	GT	CGG
(GAT)	 AG	5105-5213	TG	GGT
-recovered pasa_asmbl_46566.p1, internal, 4666, 4820
Couldn't classify 5105, 5212
Sorry, prediction GlimmerHMM_glimmerT_62016-T1 fails validation.
(ATG)	 AA	2158-2178	GT	AGG
(CTG)	 AG	4666-4820	GT	CGG
(GAT)	 AG	5105-5212	GT	AGG
-recovered GlimmerHMM_glimmerT_62016-T1, initial, 2158, 2178
-recovered GlimmerHMM_glimmerT_62016-T1, internal, 4666, 4820
-recovered GlimmerHMM_glimmerT_62016-T1, internal, 5105, 5212

-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 GlimmerHMM_glimmerT_62015-T1
Couldn't classify 817, 980
Sorry, prediction snap_scaffold_582-snap.3-T1 fails validation.
(GAG)	 AG	817-980	GT	AGG
(GAA)	 AG	1870-2235	TG	GAT
-recovered snap_scaffold_582-snap.3-T1, terminal, 1870, 2235
-recovered snap_scaffold_582-snap.3-T1, internal, 817, 980
Couldn't classify 5392, 5598
Sorry, prediction snap_scaffold_582-snap.1-T1 fails validation.
(ATG)	 TG	2235-2316	GT	AGG
(GGA)	 AG	5018-5124	GT	CGG
(GGT)	 AG	5392-5598	GT	TGG
-recovered snap_scaffold_582-snap.1-T1, initial, 2235, 2316
-recovered snap_scaffold_582-snap.1-T1, internal, 5018, 5124
-recovered snap_scaffold_582-snap.1-T1, internal, 5392, 5598
Couldn't classify 5392, 5598
Sorry, prediction Augustus_model.g41219.t1 fails validation.
(ATG)	 CG	4989-5035	GT	AGG
(GGT)	 AG	5392-5598	GT	TGG
-recovered Augustus_model.g41219.t1, initial, 4989, 5035
-recovered Augustus_model.g41219.t1, internal, 5392, 5598
Valid prediction for GeneMark_model.107981_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3387, rend_intergenic: 2001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5212, rend_intergenic: 3387  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5621
-exon list size: 63


building trellis

1.5    
3.1    
4.6    
6.2    
7.7    
9.2    
10.8    
12.3    
13.8    
15.4    
16.9    
18.5    
20.0    
21.5    
23.1    
24.6    
26.2    
27.7    
29.2    
30.8    
32.3    
33.8    
35.4    
36.9    
38.5    
40.0    
41.5    
43.1    
44.6    
46.2    
47.7    
49.2    
50.8    
52.3    
53.8    
55.4    
56.9    
58.5    
60.0    
61.5    
63.1    
64.6    
66.2    
67.7    
69.2    
70.8    
72.3    
73.8    
75.4    
76.9    
78.5    
80.0    
81.5    
83.1    
84.6    
86.2    
87.7    
89.2    
90.8    
92.3    
93.8    
95.4    
96.9    
98.5    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 3387, rend_intergenic: 2001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5212, rend_intergenic: 3387  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support