-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_25/scaffold_25_4044566-4201419

-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 GlimmerHMM_glimmerT_53967-T1
Valid prediction for GlimmerHMM_glimmerT_53956-T1
Valid prediction for snap_scaffold_25-snap.851-T1
Valid prediction for snap_scaffold_25-snap.860-T1
Valid prediction for Augustus_model.g35805.t1
Valid prediction for Augustus_model.g35804.t1
Couldn't classify 74627, 74677
Sorry, prediction pasa_asmbl_33477.p1 fails validation.
(ACC)	 GA	74627-74677	GT	AGG
(CTT)	 AG	74812-74901	GT	AGG
(GAG)	 AG	75031-75217	GT	CAG
(ATA)	 AG	76008-76081	GT	AGG
(AAA)	 AG	76288-76374	GT	AGG
(CAA)	 AG	76470-76529	TG	GAT
-recovered pasa_asmbl_33477.p1, terminal, 76470, 76529
-recovered pasa_asmbl_33477.p1, internal, 74812, 74901
-recovered pasa_asmbl_33477.p1, internal, 75031, 75217
-recovered pasa_asmbl_33477.p1, internal, 76008, 76081
-recovered pasa_asmbl_33477.p1, internal, 76288, 76374
Valid prediction for snap_scaffold_25-snap.847-T1
Valid prediction for snap_scaffold_25-snap.848-T1
Valid prediction for snap_scaffold_25-snap.834-T1
Valid prediction for GlimmerHMM_glimmerT_53960-T1
Valid prediction for Augustus_model.g35812.t1
Valid prediction for snap_scaffold_25-snap.852-T1
Valid prediction for snap_scaffold_25-snap.832-T1
Valid prediction for Augustus_model.g35815.t1
Valid prediction for GlimmerHMM_glimmerT_53962-T1
Valid prediction for GlimmerHMM_glimmerT_53958-T1
Valid prediction for HiQ_model.g35809.t1
Valid prediction for snap_scaffold_25-snap.833-T1
Valid prediction for snap_scaffold_25-snap.838-T1
Valid prediction for Augustus_model.g35813.t1
Valid prediction for snap_scaffold_25-snap.856-T1
Valid prediction for snap_scaffold_25-snap.843-T1
Couldn't classify 74033, 74089
Sorry, prediction pasa_asmbl_33474.p1 fails validation.
(ATG)	 AC	73088-73168	GT	GAG
(GCT)	 AG	73259-73323	GT	TGG
(GGT)	 AG	73413-73557	GT	TTG
(GGT)	 AG	73788-73937	GT	AGG
(GTT)	 AG	74033-74089	TG	GTT
-recovered pasa_asmbl_33474.p1, initial, 73088, 73168
-recovered pasa_asmbl_33474.p1, internal, 73259, 73323
-recovered pasa_asmbl_33474.p1, internal, 73413, 73557
-recovered pasa_asmbl_33474.p1, internal, 73788, 73937
Valid prediction for snap_scaffold_25-snap.854-T1
Valid prediction for GlimmerHMM_glimmerT_53968-T1
Valid prediction for Augustus_model.g35811.t1
Valid prediction for Augustus_model.g35814.t1
Valid prediction for snap_scaffold_25-snap.849-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: -)Valid prediction for Augustus_model.g35808.t1
Valid prediction for snap_scaffold_25-snap.845-T1
Valid prediction for snap_scaffold_25-snap.835-T1
Valid prediction for snap_scaffold_25-snap.829-T1
Valid prediction for Augustus_model.g35810.t1
Valid prediction for GlimmerHMM_glimmerT_53964-T1
Valid prediction for GlimmerHMM_glimmerT_53966-T1
Valid prediction for snap_scaffold_25-snap.850-T1
Valid prediction for GlimmerHMM_glimmerT_53954-T1
Couldn't classify 92804, 93061
Sorry, prediction pasa_asmbl_34594.p2 fails validation.
(ATG)	 CC	91304-91441	GT	AGG
(GTG)	 AG	92804-93061	GT	CGG
-recovered pasa_asmbl_34594.p2, initial, 91304, 91441
-recovered pasa_asmbl_34594.p2, internal, 92804, 93061
Valid prediction for snap_scaffold_25-snap.841-T1
Valid prediction for snap_scaffold_25-snap.830-T1
Valid prediction for snap_scaffold_25-snap.831-T1
Valid prediction for GlimmerHMM_glimmerT_53963-T1
Valid prediction for GlimmerHMM_glimmerT_53957-T1
Valid prediction for GlimmerHMM_glimmerT_53955-T1
Valid prediction for GlimmerHMM_glimmerT_53961-T1
Valid prediction for snap_scaffold_25-snap.859-T1
Valid prediction for snap_scaffold_25-snap.839-T1
Valid prediction for snap_scaffold_25-snap.853-T1
Valid prediction for snap_scaffold_25-snap.842-T1
Valid prediction for GlimmerHMM_glimmerT_53959-T1
Couldn't classify 77282, 77305
Sorry, prediction pasa_asmbl_34170.p1 fails validation.
(ATA)	 TT	77282-77305	GT	AGG
(TCC)	 AG	77529-77636	GT	GGG
(CTT)	 AG	77804-77884	GT	GAG
(CAC)	 AG	77990-78193	GC	GAG
-recovered pasa_asmbl_34170.p1, terminal, 77990, 78193
-recovered pasa_asmbl_34170.p1, internal, 77529, 77636
-recovered pasa_asmbl_34170.p1, internal, 77804, 77884
-recovered pasa_asmbl_34170.p1, internal, 77990, 78193
Valid prediction for snap_scaffold_25-snap.846-T1
Valid prediction for snap_scaffold_25-snap.861-T1
Valid prediction for snap_scaffold_25-snap.844-T1
Valid prediction for snap_scaffold_25-snap.858-T1
Valid prediction for snap_scaffold_25-snap.840-T1
Couldn't classify 93596, 95074
Sorry, prediction pasa_asmbl_34169.p1 fails validation.
(CAT)	 CT	93596-95074	TA	GAT
Valid prediction for Augustus_model.g35806.t1
Valid prediction for GlimmerHMM_glimmerT_53965-T1
Valid prediction for Augustus_model.g35807.t1
Valid prediction for snap_scaffold_25-snap.836-T1
Valid prediction for snap_scaffold_25-snap.855-T1
Valid prediction for snap_scaffold_25-snap.857-T1
Couldn't classify 102868, 103476
Sorry, prediction pasa_asmbl_34167.p1 fails validation.
(CTG)	 GT	102868-103476	AT	AGA
Valid prediction for snap_scaffold_25-snap.837-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 123509, rend_intergenic: 119027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126623, rend_intergenic: 124254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156854
-exon list size: 214


building trellis

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9.3    
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12.0    
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13.9    
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17.6    
18.1    
18.5    
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19.9    
20.4    
20.8    
21.3    
21.8    
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24.1    
24.5    
25.0    
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25.9    
26.4    
26.9    
27.3    
27.8    
28.2    
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29.2    
29.6    
30.1    
30.6    
31.0    
31.5    
31.9    
32.4    
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33.3    
33.8    
34.3    
34.7    
35.2    
35.6    
36.1    
36.6    
37.0    
37.5    
38.0    
38.4    
38.9    
39.4    
39.8    
40.3    
40.7    
41.2    
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42.6    
43.1    
43.5    
44.0    
44.4    
44.9    
45.4    
45.8    
46.3    
46.8    
47.2    
47.7    
48.1    
48.6    
49.1    
49.5    
50.0    
50.5    
50.9    
51.4    
51.9    
52.3    
52.8    
53.2    
53.7    
54.2    
54.6    
55.1    
55.6    
56.0    
56.5    
56.9    
57.4    
57.9    
58.3    
58.8    
59.3    
59.7    
60.2    
60.6    
61.1    
61.6    
62.0    
62.5    
63.0    
63.4    
63.9    
64.4    
64.8    
65.3    
65.7    
66.2    
66.7    
67.1    
67.6    
68.1    
68.5    
69.0    
69.4    
69.9    
70.4    
70.8    
71.3    
71.8    
72.2    
72.7    
73.1    
73.6    
74.1    
74.5    
75.0    
75.5    
75.9    
76.4    
76.9    
77.3    
77.8    
78.2    
78.7    
79.2    
79.6    
80.1    
80.6    
81.0    
81.5    
81.9    
82.4    
82.9    
83.3    
83.8    
84.3    
84.7    
85.2    
85.6    
86.1    
86.6    
87.0    
87.5    
88.0    
88.4    
88.9    
89.4    
89.8    
90.3    
90.7    
91.2    
91.7    
92.1    
92.6    
93.1    
93.5    
94.0    
94.4    
94.9    
95.4    
95.8    
96.3    
96.8    
97.2    
97.7    
98.1    
98.6    
99.1    
99.5    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 123509, rend_intergenic: 119027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126623, rend_intergenic: 124254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support