-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_12970080-13125683

-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_7528-T1
Valid prediction for Augustus_model.g4913.t1
Valid prediction for GlimmerHMM_glimmerT_7525-T1
Valid prediction for Augustus_model.g4923.t1
Valid prediction for snap_scaffold_3-snap.2535-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_7536-T1
Valid prediction for Augustus_model.g4925.t1
Valid prediction for snap_scaffold_3-snap.2537-T1
Valid prediction for GlimmerHMM_glimmerT_7545-T1
Valid prediction for snap_scaffold_3-snap.2516-T1
Valid prediction for Augustus_model.g4916.t1
Valid prediction for GlimmerHMM_glimmerT_7538-T1
Valid prediction for snap_scaffold_3-snap.2513-T1
Valid prediction for GlimmerHMM_glimmerT_7547-T1
Valid prediction for snap_scaffold_3-snap.2521-T1
Valid prediction for GlimmerHMM_glimmerT_7518-T1
Valid prediction for Augustus_model.g4908.t1
Valid prediction for GlimmerHMM_glimmerT_7523-T1
Valid prediction for Augustus_model.g4921.t1
Valid prediction for snap_scaffold_3-snap.2514-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g4926.t1
Valid prediction for snap_scaffold_3-snap.2526-T1
Valid prediction for Augustus_model.g4928.t1
Valid prediction for snap_scaffold_3-snap.2517-T1
Valid prediction for snap_scaffold_3-snap.2511-T1
Valid prediction for snap_scaffold_3-snap.2534-T1
Valid prediction for Augustus_model.g4911.t1
Valid prediction for snap_scaffold_3-snap.2512-T1
Valid prediction for GlimmerHMM_glimmerT_7519-T1
Valid prediction for Augustus_model.g4909.t1
Valid prediction for snap_scaffold_3-snap.2520-T1
Valid prediction for GlimmerHMM_glimmerT_7539-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_3-snap.2515-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g4917.t1
Valid prediction for snap_scaffold_3-snap.2528-T1
Valid prediction for snap_scaffold_3-snap.2522-T1
Valid prediction for GlimmerHMM_glimmerT_7533-T1
Valid prediction for GlimmerHMM_glimmerT_7522-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.2530-T1
Valid prediction for GlimmerHMM_glimmerT_7546-T1
Valid prediction for GlimmerHMM_glimmerT_7534-T1
Valid prediction for GlimmerHMM_glimmerT_7527-T1
Valid prediction for Augustus_model.g4912.t1
Valid prediction for GlimmerHMM_glimmerT_7544-T1
Valid prediction for snap_scaffold_3-snap.2525-T1
Valid prediction for Augustus_model.g4915.t1
Valid prediction for snap_scaffold_3-snap.2532-T1
Valid prediction for GlimmerHMM_glimmerT_7521-T1
Valid prediction for snap_scaffold_3-snap.2519-T1
Valid prediction for snap_scaffold_3-snap.2533-T1
Couldn't classify 145412, 145750
Sorry, prediction pasa_asmbl_39697.p1 fails validation.
(CAG)	 GC	145412-145750	GG	AGG
Valid prediction for GlimmerHMM_glimmerT_7526-T1
Valid prediction for Augustus_model.g4924.t1
Valid prediction for GlimmerHMM_glimmerT_7540-T1
Valid prediction for GlimmerHMM_glimmerT_7530-T1
Valid prediction for snap_scaffold_3-snap.2523-T1
Valid prediction for snap_scaffold_3-snap.2518-T1
Valid prediction for GlimmerHMM_glimmerT_7542-T1
Valid prediction for GlimmerHMM_glimmerT_7541-T1
Valid prediction for GlimmerHMM_glimmerT_7520-T1
Valid prediction for Augustus_model.g4922.t1
Valid prediction for Augustus_model.g4927.t1
Valid prediction for snap_scaffold_3-snap.2524-T1
Valid prediction for GlimmerHMM_glimmerT_7529-T1
Valid prediction for GlimmerHMM_glimmerT_7524-T1
Valid prediction for snap_scaffold_3-snap.2529-T1
Valid prediction for GlimmerHMM_glimmerT_7537-T1
Valid prediction for snap_scaffold_3-snap.2527-T1
Valid prediction for Augustus_model.g4920.t1
Valid prediction for Augustus_model.g4910.t1
Valid prediction for Augustus_model.g4919.t1
Valid prediction for snap_scaffold_3-snap.2536-T1
Couldn't classify 32008, 32760
Sorry, prediction pasa_asmbl_39246.p1 fails validation.
(TTC)	 AC	32008-32760	TT	TGT
Valid prediction for snap_scaffold_3-snap.2531-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_7535-T1
Valid prediction for GlimmerHMM_glimmerT_7532-T1
Valid prediction for GlimmerHMM_glimmerT_7543-T1
Valid prediction for snap_scaffold_3-snap.2510-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_7531-T1
Valid prediction for Augustus_model.g4918.t1
Valid prediction for Augustus_model.g4914.t1
Valid prediction for Augustus_model.g4929.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 155604
-exon list size: 197


building trellis

0.5    
1.0    
1.5    
2.0    
2.5    
3.0    
3.5    
4.0    
4.5    
5.0    
5.5    
6.0    
6.5    
7.0    
7.5    
8.0    
8.5    
9.0    
9.5    
10.1    
10.6    
11.1    
11.6    
12.1    
12.6    
13.1    
13.6    
14.1    
14.6    
15.1    
15.6    
16.1    
16.6    
17.1    
17.6    
18.1    
18.6    
19.1    
19.6    
20.1    
20.6    
21.1    
21.6    
22.1    
22.6    
23.1    
23.6    
24.1    
24.6    
25.1    
25.6    
26.1    
26.6    
27.1    
27.6    
28.1    
28.6    
29.1    
29.6    
30.2    
30.7    
31.2    
31.7    
32.2    
32.7    
33.2    
33.7    
34.2    
34.7    
35.2    
35.7    
36.2    
36.7    
37.2    
37.7    
38.2    
38.7    
39.2    
39.7    
40.2    
40.7    
41.2    
41.7    
42.2    
42.7    
43.2    
43.7    
44.2    
44.7    
45.2    
45.7    
46.2    
46.7    
47.2    
47.7    
48.2    
48.7    
49.2    
49.7    
50.3    
50.8    
51.3    
51.8    
52.3    
52.8    
53.3    
53.8    
54.3    
54.8    
55.3    
55.8    
56.3    
56.8    
57.3    
57.8    
58.3    
58.8    
59.3    
59.8    
60.3    
60.8    
61.3    
61.8    
62.3    
62.8    
63.3    
63.8    
64.3    
64.8    
65.3    
65.8    
66.3    
66.8    
67.3    
67.8    
68.3    
68.8    
69.3    
69.8    
70.4    
70.9    
71.4    
71.9    
72.4    
72.9    
73.4    
73.9    
74.4    
74.9    
75.4    
75.9    
76.4    
76.9    
77.4    
77.9    
78.4    
78.9    
79.4    
79.9    
80.4    
80.9    
81.4    
81.9    
82.4    
82.9    
83.4    
83.9    
84.4    
84.9    
85.4    
85.9    
86.4    
86.9    
87.4    
87.9    
88.4    
88.9    
89.4    
89.9    
90.5    
91.0    
91.5    
92.0    
92.5    
93.0    
93.5    
94.0    
94.5    
95.0    
95.5    
96.0    
96.5    
97.0    
97.5    
98.0    
98.5    
99.0    
99.5    
-found 32 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 30 predictions persist after filtering for low support