-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_3/scaffold_3_13121919-13373006

-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.g4946.t1
Valid prediction for snap_scaffold_3-snap.2542-T1
Valid prediction for CodingQuarry_transcript_46313-T1
Couldn't classify 48302, 48362
Sorry, prediction pasa_asmbl_40429.p1 fails validation.
(CAG)	 GA	48302-48362	GT	TGG
(GGA)	 AG	48728-48814	GT	GGG
(GCC)	 AG	48956-49071	GT	CGG
(AGC)	 AG	49574-49750	CC	GAC
-recovered pasa_asmbl_40429.p1, terminal, 49574, 49750
-recovered pasa_asmbl_40429.p1, internal, 48728, 48814
-recovered pasa_asmbl_40429.p1, internal, 48956, 49071
Valid prediction for Augustus_model.g4945.t1
Valid prediction for snap_scaffold_3-snap.2541-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g4953.t1
Valid prediction for snap_scaffold_3-snap.2565-T1
Valid prediction for GlimmerHMM_glimmerT_7560-T1
Valid prediction for snap_scaffold_3-snap.2547-T1
Valid prediction for GlimmerHMM_glimmerT_7575-T1
Valid prediction for HiQ_model.g4930.t1
Valid prediction for Augustus_model.g4942.t1
Valid prediction for GlimmerHMM_glimmerT_7562-T1
Valid prediction for snap_scaffold_3-snap.2566-T1
Valid prediction for Augustus_model.g4951.t1
Valid prediction for Augustus_model.g4931.t1
Valid prediction for CodingQuarry_transcript_46314-T1
Valid prediction for GlimmerHMM_glimmerT_7563-T1
Valid prediction for GlimmerHMM_glimmerT_7559-T1
Valid prediction for pasa_asmbl_40434.p1
Valid prediction for GlimmerHMM_glimmerT_7576-T1
Valid prediction for GlimmerHMM_glimmerT_7553-T1
Valid prediction for Augustus_model.g4935.t1
Valid prediction for GlimmerHMM_glimmerT_7568-T1
Valid prediction for CodingQuarry_transcript_46312-T1
Valid prediction for GlimmerHMM_glimmerT_7552-T1
Valid prediction for CodingQuarry_transcript_46315-T1
Valid prediction for Augustus_model.g4941.t1
Valid prediction for snap_scaffold_3-snap.2548-T1
Valid prediction for GlimmerHMM_glimmerT_7578-T1
Valid prediction for snap_scaffold_3-snap.2574-T1
Valid prediction for snap_scaffold_3-snap.2563-T1
Valid prediction for HiQ_model.g4936.t1
Valid prediction for Augustus_model.g4933.t1
Valid prediction for Augustus_model.g4949.t1
Valid prediction for GlimmerHMM_glimmerT_7549-T1
Valid prediction for GlimmerHMM_glimmerT_7572-T1
Valid prediction for snap_scaffold_3-snap.2557-T1
Valid prediction for GlimmerHMM_glimmerT_7550-T1
Valid prediction for GlimmerHMM_glimmerT_7579-T1
Valid prediction for snap_scaffold_3-snap.2546-T1
Valid prediction for pasa_asmbl_40423.p1
Valid prediction for pasa_asmbl_40421.p1
Valid prediction for snap_scaffold_3-snap.2573-T1
Valid prediction for GlimmerHMM_glimmerT_7569-T1
Valid prediction for snap_scaffold_3-snap.2553-T1
Valid prediction for snap_scaffold_3-snap.2570-T1
Valid prediction for CodingQuarry_transcript_46316-T1
Valid prediction for snap_scaffold_3-snap.2538-T1
Valid prediction for snap_scaffold_3-snap.2569-T1
Valid prediction for Augustus_model.g4938.t1
Valid prediction for snap_scaffold_3-snap.2576-T1
Valid prediction for GlimmerHMM_glimmerT_7556-T1
Valid prediction for snap_scaffold_3-snap.2551-T1
Valid prediction for GlimmerHMM_glimmerT_7570-T1
Valid prediction for snap_scaffold_3-snap.2558-T1
Valid prediction for snap_scaffold_3-snap.2564-T1
Valid prediction for snap_scaffold_3-snap.2540-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 snap_scaffold_3-snap.2550-T1
Valid prediction for snap_scaffold_3-snap.2568-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for Augustus_model.g4948.t1
Valid prediction for GlimmerHMM_glimmerT_7548-T1
Valid prediction for snap_scaffold_3-snap.2575-T1
Valid prediction for snap_scaffold_3-snap.2539-T1
Valid prediction for Augustus_model.g4939.t1
Valid prediction for snap_scaffold_3-snap.2572-T1
Valid prediction for Augustus_model.g4944.t1
Valid prediction for GlimmerHMM_glimmerT_7565-T1
Valid prediction for snap_scaffold_3-snap.2571-T1
Valid prediction for snap_scaffold_3-snap.2552-T1
Valid prediction for HiQ_model.g4950.t1
Valid prediction for GlimmerHMM_glimmerT_7574-T1
Valid prediction for Augustus_model.g4932.t1
Valid prediction for Augustus_model.g4934.t1
Valid prediction for GlimmerHMM_glimmerT_7573-T1
Valid prediction for snap_scaffold_3-snap.2561-T1
Valid prediction for snap_scaffold_3-snap.2549-T1
Valid prediction for snap_scaffold_3-snap.2545-T1
Valid prediction for GlimmerHMM_glimmerT_7561-T1
Valid prediction for snap_scaffold_3-snap.2555-T1
Valid prediction for Augustus_model.g4940.t1
Valid prediction for CodingQuarry_transcript_46317-T1
Valid prediction for Augustus_model.g4947.t1
Valid prediction for GlimmerHMM_glimmerT_7558-T1
Valid prediction for snap_scaffold_3-snap.2554-T1
Valid prediction for Augustus_model.g4952.t1
Valid prediction for Augustus_model.g4943.t1
Valid prediction for GlimmerHMM_glimmerT_7551-T1
Valid prediction for pasa_asmbl_39250.p1
Valid prediction for snap_scaffold_3-snap.2567-T1
Valid prediction for Augustus_model.g4937.t1
Valid prediction for GlimmerHMM_glimmerT_7557-T1
Valid prediction for GlimmerHMM_glimmerT_7555-T1
Valid prediction for snap_scaffold_3-snap.2559-T1
Valid prediction for snap_scaffold_3-snap.2556-T1
Valid prediction for snap_scaffold_3-snap.2562-T1
Valid prediction for CodingQuarry_transcript_46318-T1
Valid prediction for snap_scaffold_3-snap.2560-T1
Valid prediction for CodingQuarry_transcript_46319-T1
Valid prediction for GlimmerHMM_glimmerT_7577-T1
Valid prediction for snap_scaffold_3-snap.2543-T1
Valid prediction for GlimmerHMM_glimmerT_7571-T1
Valid prediction for GlimmerHMM_glimmerT_7564-T1
Valid prediction for GlimmerHMM_glimmerT_7567-T1
Valid prediction for GlimmerHMM_glimmerT_7566-T1
Valid prediction for GlimmerHMM_glimmerT_7554-T1
Valid prediction for snap_scaffold_3-snap.2544-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 39798, rend_intergenic: 36123  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 251088
-exon list size: 293


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.1    
3.4    
3.7    
4.1    
4.4    
4.7    
5.1    
5.4    
5.8    
6.1    
6.4    
6.8    
7.1    
7.5    
7.8    
8.1    
8.5    
8.8    
9.2    
9.5    
9.8    
10.2    
10.5    
10.8    
11.2    
11.5    
11.9    
12.2    
12.5    
12.9    
13.2    
13.6    
13.9    
14.2    
14.6    
14.9    
15.3    
15.6    
15.9    
16.3    
16.6    
16.9    
17.3    
17.6    
18.0    
18.3    
18.6    
19.0    
19.3    
19.7    
20.0    
20.3    
20.7    
21.0    
21.4    
21.7    
22.0    
22.4    
22.7    
23.1    
23.4    
23.7    
24.1    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.4    
26.8    
27.1    
27.5    
27.8    
28.1    
28.5    
28.8    
29.2    
29.5    
29.8    
30.2    
30.5    
30.8    
31.2    
31.5    
31.9    
32.2    
32.5    
32.9    
33.2    
33.6    
33.9    
34.2    
34.6    
34.9    
35.3    
35.6    
35.9    
36.3    
36.6    
36.9    
37.3    
37.6    
38.0    
38.3    
38.6    
39.0    
39.3    
39.7    
40.0    
40.3    
40.7    
41.0    
41.4    
41.7    
42.0    
42.4    
42.7    
43.1    
43.4    
43.7    
44.1    
44.4    
44.7    
45.1    
45.4    
45.8    
46.1    
46.4    
46.8    
47.1    
47.5    
47.8    
48.1    
48.5    
48.8    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.2    
51.5    
51.9    
52.2    
52.5    
52.9    
53.2    
53.6    
53.9    
54.2    
54.6    
54.9    
55.3    
55.6    
55.9    
56.3    
56.6    
56.9    
57.3    
57.6    
58.0    
58.3    
58.6    
59.0    
59.3    
59.7    
60.0    
60.3    
60.7    
61.0    
61.4    
61.7    
62.0    
62.4    
62.7    
63.1    
63.4    
63.7    
64.1    
64.4    
64.7    
65.1    
65.4    
65.8    
66.1    
66.4    
66.8    
67.1    
67.5    
67.8    
68.1    
68.5    
68.8    
69.2    
69.5    
69.8    
70.2    
70.5    
70.8    
71.2    
71.5    
71.9    
72.2    
72.5    
72.9    
73.2    
73.6    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
75.9    
76.3    
76.6    
76.9    
77.3    
77.6    
78.0    
78.3    
78.6    
79.0    
79.3    
79.7    
80.0    
80.3    
80.7    
81.0    
81.4    
81.7    
82.0    
82.4    
82.7    
83.1    
83.4    
83.7    
84.1    
84.4    
84.7    
85.1    
85.4    
85.8    
86.1    
86.4    
86.8    
87.1    
87.5    
87.8    
88.1    
88.5    
88.8    
89.2    
89.5    
89.8    
90.2    
90.5    
90.8    
91.2    
91.5    
91.9    
92.2    
92.5    
92.9    
93.2    
93.6    
93.9    
94.2    
94.6    
94.9    
95.3    
95.6    
95.9    
96.3    
96.6    
96.9    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 39798, rend_intergenic: 36123  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 32 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 16584
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 3793 - 16584
-exon list size: 1


building trellis

33.3    
66.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support