-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_395

-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 187, 284
Sorry, prediction GeneMark_model.107512_t fails validation.
(GGG)	 AG	187-284	GT	AGG
(GGG)	 AG	308-337	GT	GGG
(GGG)	 AG	424-441	GT	GGG
(GGG)	 AG	471-488	GT	GGG
(GGG)	 AG	518-535	GT	GGG
(GGG)	 AG	565-582	GT	GGG
(GGG)	 AG	612-629	GT	GGG
(CAG)	 AG	833-941	GG	GAG
-recovered GeneMark_model.107512_t, terminal, 833, 941
-recovered GeneMark_model.107512_t, internal, 187, 284
-recovered GeneMark_model.107512_t, internal, 308, 337
-recovered GeneMark_model.107512_t, internal, 424, 441
-recovered GeneMark_model.107512_t, internal, 471, 488
-recovered GeneMark_model.107512_t, internal, 518, 535
-recovered GeneMark_model.107512_t, internal, 565, 582
-recovered GeneMark_model.107512_t, internal, 612, 629
Couldn't classify 7249, 7348
Sorry, prediction snap_scaffold_395-snap.3-T1 fails validation.
(ATG)	 AG	6857-6977	GT	CTG
(GGA)	 AG	7249-7348	GT	GGG
-recovered snap_scaffold_395-snap.3-T1, initial, 6857, 6977
-recovered snap_scaffold_395-snap.3-T1, internal, 6857, 6977
-recovered snap_scaffold_395-snap.3-T1, internal, 7249, 7348
Valid prediction for snap_scaffold_395-snap.2-T1
Valid prediction for GeneMark_model.107514_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 2828, 3027
Sorry, prediction GlimmerHMM_glimmerT_61792-T1 fails validation.
(AAA)	 AG	2828-3027	GT	CGG
(GTT)	 AG	3234-3340	GT	ATG
(GAA)	 AG	3763-3969	GT	AGG
(GAA)	 AG	4327-4533	GT	AGG
(GTT)	 AG	5967-6138	GA	GAG
-recovered GlimmerHMM_glimmerT_61792-T1, terminal, 5967, 6138
-recovered GlimmerHMM_glimmerT_61792-T1, internal, 2828, 3027
-recovered GlimmerHMM_glimmerT_61792-T1, internal, 3234, 3340
-recovered GlimmerHMM_glimmerT_61792-T1, internal, 3763, 3969
-recovered GlimmerHMM_glimmerT_61792-T1, internal, 4327, 4533
Couldn't classify 700, 779
Sorry, prediction GeneMark_model.107515_t fails validation.
(GAG)	 AG	700-779	GT	GGG
(GAG)	 AG	807-812	GT	GGG
(GAG)	 AG	839-844	GT	GGG
(GAG)	 AG	872-877	GT	GGG
(GTT)	 AG	1005-1068	GC	AGG
-recovered GeneMark_model.107515_t, terminal, 1005, 1068
-recovered GeneMark_model.107515_t, internal, 700, 779
-recovered GeneMark_model.107515_t, internal, 807, 812
-recovered GeneMark_model.107515_t, internal, 839, 844
-recovered GeneMark_model.107515_t, internal, 872, 877
-recovered GeneMark_model.107515_t, internal, 1005, 1068
Valid prediction for Augustus_model.g41067.t1
Couldn't classify 2827, 3027
Couldn't classify 5967, 6105
Sorry, prediction pasa_asmbl_41033.p1 fails validation.
(GAA)	 CA	2827-3027	GT	CGG
(GTT)	 AG	3234-3340	GT	ATG
(GAA)	 AG	4327-4533	GT	AGG
(GTT)	 AG	5967-6105	GA	GTG
-recovered pasa_asmbl_41033.p1, internal, 3234, 3340
-recovered pasa_asmbl_41033.p1, internal, 4327, 4533
Couldn't classify 700, 779
Couldn't classify 5967, 6103
Sorry, prediction snap_scaffold_395-snap.1-T1 fails validation.
(GAG)	 AG	700-779	GT	GGG
(AAA)	 AG	2828-3126	GT	TGG
(GTT)	 AG	3234-3340	GT	ATG
(GAA)	 AG	3763-3969	GT	AGG
(GAA)	 AG	4327-4533	GT	AGG
(GTT)	 AG	5967-6103	GT	TGG
-recovered snap_scaffold_395-snap.1-T1, internal, 700, 779
-recovered snap_scaffold_395-snap.1-T1, internal, 2828, 3126
-recovered snap_scaffold_395-snap.1-T1, internal, 3234, 3340
-recovered snap_scaffold_395-snap.1-T1, internal, 3763, 3969
-recovered snap_scaffold_395-snap.1-T1, internal, 4327, 4533
-recovered snap_scaffold_395-snap.1-T1, internal, 5967, 6103
Valid prediction for GeneMark_model.107513_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6657, rend_intergenic: 3487  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7356
-exon list size: 64


building trellis

1.5    
3.0    
4.5    
6.1    
7.6    
9.1    
10.6    
12.1    
13.6    
15.2    
16.7    
18.2    
19.7    
21.2    
22.7    
24.2    
25.8    
27.3    
28.8    
30.3    
31.8    
33.3    
34.8    
36.4    
37.9    
39.4    
40.9    
42.4    
43.9    
45.5    
47.0    
48.5    
50.0    
51.5    
53.0    
54.5    
56.1    
57.6    
59.1    
60.6    
62.1    
63.6    
65.2    
66.7    
68.2    
69.7    
71.2    
72.7    
74.2    
75.8    
77.3    
78.8    
80.3    
81.8    
83.3    
84.8    
86.4    
87.9    
89.4    
90.9    
92.4    
93.9    
95.5    
97.0    
98.5    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 6657, rend_intergenic: 3487  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