-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_1-176775

-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_46956-T1
Valid prediction for GlimmerHMM_glimmerT_46943-T1
Valid prediction for snap_scaffold_21-snap.32-T1
Valid prediction for snap_scaffold_21-snap.22-T1
Valid prediction for snap_scaffold_21-snap.9-T1
Valid prediction for snap_scaffold_21-snap.30-T1
Valid prediction for snap_scaffold_21-snap.21-T1
Valid prediction for snap_scaffold_21-snap.23-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g31240.t1
Valid prediction for Augustus_model.g31246.t1
Valid prediction for snap_scaffold_21-snap.7-T1
Valid prediction for snap_scaffold_21-snap.31-T1
Valid prediction for snap_scaffold_21-snap.8-T1
Valid prediction for GlimmerHMM_glimmerT_46946-T1
Valid prediction for Augustus_model.g31237.t1
Valid prediction for snap_scaffold_21-snap.16-T1
Valid prediction for snap_scaffold_21-snap.35-T1
Valid prediction for snap_scaffold_21-snap.18-T1
Valid prediction for snap_scaffold_21-snap.13-T1
Valid prediction for GlimmerHMM_glimmerT_46954-T1
Valid prediction for GlimmerHMM_glimmerT_46962-T1
Valid prediction for Augustus_model.g31233.t1
Valid prediction for Augustus_model.g31241.t1
Valid prediction for Augustus_model.g31239.t1
Valid prediction for Augustus_model.g31238.t1
Valid prediction for Augustus_model.g31253.t1
Valid prediction for GlimmerHMM_glimmerT_46960-T1
Valid prediction for GlimmerHMM_glimmerT_46940-T1
Valid prediction for Augustus_model.g31247.t1
Valid prediction for Augustus_model.g31256.t1
Valid prediction for Augustus_model.g31229.t1
Valid prediction for GlimmerHMM_glimmerT_46952-T1
Valid prediction for snap_scaffold_21-snap.10-T1
Valid prediction for snap_scaffold_21-snap.14-T1
Valid prediction for GlimmerHMM_glimmerT_46964-T1
Valid prediction for Augustus_model.g31250.t1
Valid prediction for snap_scaffold_21-snap.25-T1
Valid prediction for Augustus_model.g31244.t1
Valid prediction for snap_scaffold_21-snap.15-T1
Valid prediction for Augustus_model.g31248.t1
Couldn't classify 119384, 119809
Sorry, prediction pasa_asmbl_28219.p1 fails validation.
(GAC)	 CG	119384-119809	TC	GCT
Valid prediction for Augustus_model.g31255.t1
Valid prediction for Augustus_model.g31257.t1
Valid prediction for snap_scaffold_21-snap.29-T1
Valid prediction for snap_scaffold_21-snap.20-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_46947-T1
Valid prediction for GlimmerHMM_glimmerT_46949-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 GlimmerHMM_glimmerT_46958-T1
Valid prediction for GlimmerHMM_glimmerT_46950-T1
Valid prediction for Augustus_model.g31223.t1
Valid prediction for Augustus_model.g31243.t1
Valid prediction for snap_scaffold_21-snap.27-T1
Valid prediction for GlimmerHMM_glimmerT_46939-T1
Valid prediction for HiQ_model.g31227.t1
Valid prediction for GlimmerHMM_glimmerT_46963-T1
Valid prediction for snap_scaffold_21-snap.6-T1
Valid prediction for snap_scaffold_21-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_46961-T1
Valid prediction for GlimmerHMM_glimmerT_46944-T1
Valid prediction for snap_scaffold_21-snap.5-T1
Valid prediction for Augustus_model.g31254.t1
Valid prediction for GlimmerHMM_glimmerT_46942-T1
Valid prediction for snap_scaffold_21-snap.12-T1
Valid prediction for GlimmerHMM_glimmerT_46948-T1
Valid prediction for snap_scaffold_21-snap.26-T1
Valid prediction for Augustus_model.g31224.t1
Valid prediction for GlimmerHMM_glimmerT_46934-T1
Valid prediction for Augustus_model.g31245.t1
Valid prediction for GlimmerHMM_glimmerT_46945-T1
Valid prediction for snap_scaffold_21-snap.33-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g31230.t1
Valid prediction for GlimmerHMM_glimmerT_46938-T1
Valid prediction for snap_scaffold_21-snap.11-T1
Valid prediction for GlimmerHMM_glimmerT_46941-T1
Valid prediction for HiQ_model.g31235.t1
Valid prediction for Augustus_model.g31232.t1
Valid prediction for Augustus_model.g31236.t1
Valid prediction for snap_scaffold_21-snap.4-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_46937-T1
Valid prediction for Augustus_model.g31225.t1
Valid prediction for snap_scaffold_21-snap.1-T1
Valid prediction for Augustus_model.g31242.t1
Valid prediction for snap_scaffold_21-snap.19-T1
Valid prediction for Augustus_model.g31251.t1
Valid prediction for snap_scaffold_21-snap.24-T1
Valid prediction for GlimmerHMM_glimmerT_46959-T1
Valid prediction for GlimmerHMM_glimmerT_46951-T1
Valid prediction for pasa_asmbl_27262.p2
Valid prediction for Augustus_model.g31228.t1
Valid prediction for snap_scaffold_21-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_46936-T1
Valid prediction for Augustus_model.g31234.t1
Valid prediction for GlimmerHMM_glimmerT_46953-T1
Valid prediction for snap_scaffold_21-snap.28-T1
Valid prediction for Augustus_model.g31249.t1
Valid prediction for Augustus_model.g31252.t1
Couldn't classify 143146, 143346
Couldn't classify 143549, 143842
Sorry, prediction pasa_asmbl_27268.p1 fails validation.
(AGA)	 TG	143146-143346	GT	AGG
(GAC)	 AG	143549-143842	TA	GGT
Valid prediction for snap_scaffold_21-snap.17-T1
Valid prediction for snap_scaffold_21-snap.34-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_46933-T1
Valid prediction for GlimmerHMM_glimmerT_46935-T1
Valid prediction for Augustus_model.g31231.t1
Couldn't classify 36180, 36740
Sorry, prediction pasa_asmbl_28246.p1 fails validation.
(GAC)	 TC	36180-36740	TA	TGT
Valid prediction for CodingQuarry_transcript_32404-T1
Valid prediction for GlimmerHMM_glimmerT_46957-T1
Valid prediction for Augustus_model.g31226.t1
Valid prediction for GlimmerHMM_glimmerT_46955-T1
Sorry, intron length (6) is less than minimum required (10)

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

-building trellis in range 1 - 176775
-exon list size: 260


building trellis

0.4    
0.8    
1.1    
1.5    
1.9    
2.3    
2.7    
3.1    
3.4    
3.8    
4.2    
4.6    
5.0    
5.3    
5.7    
6.1    
6.5    
6.9    
7.3    
7.6    
8.0    
8.4    
8.8    
9.2    
9.5    
9.9    
10.3    
10.7    
11.1    
11.5    
11.8    
12.2    
12.6    
13.0    
13.4    
13.7    
14.1    
14.5    
14.9    
15.3    
15.6    
16.0    
16.4    
16.8    
17.2    
17.6    
17.9    
18.3    
18.7    
19.1    
19.5    
19.8    
20.2    
20.6    
21.0    
21.4    
21.8    
22.1    
22.5    
22.9    
23.3    
23.7    
24.0    
24.4    
24.8    
25.2    
25.6    
26.0    
26.3    
26.7    
27.1    
27.5    
27.9    
28.2    
28.6    
29.0    
29.4    
29.8    
30.2    
30.5    
30.9    
31.3    
31.7    
32.1    
32.4    
32.8    
33.2    
33.6    
34.0    
34.4    
34.7    
35.1    
35.5    
35.9    
36.3    
36.6    
37.0    
37.4    
37.8    
38.2    
38.5    
38.9    
39.3    
39.7    
40.1    
40.5    
40.8    
41.2    
41.6    
42.0    
42.4    
42.7    
43.1    
43.5    
43.9    
44.3    
44.7    
45.0    
45.4    
45.8    
46.2    
46.6    
46.9    
47.3    
47.7    
48.1    
48.5    
48.9    
49.2    
49.6    
50.0    
50.4    
50.8    
51.1    
51.5    
51.9    
52.3    
52.7    
53.1    
53.4    
53.8    
54.2    
54.6    
55.0    
55.3    
55.7    
56.1    
56.5    
56.9    
57.3    
57.6    
58.0    
58.4    
58.8    
59.2    
59.5    
59.9    
60.3    
60.7    
61.1    
61.5    
61.8    
62.2    
62.6    
63.0    
63.4    
63.7    
64.1    
64.5    
64.9    
65.3    
65.6    
66.0    
66.4    
66.8    
67.2    
67.6    
67.9    
68.3    
68.7    
69.1    
69.5    
69.8    
70.2    
70.6    
71.0    
71.4    
71.8    
72.1    
72.5    
72.9    
73.3    
73.7    
74.0    
74.4    
74.8    
75.2    
75.6    
76.0    
76.3    
76.7    
77.1    
77.5    
77.9    
78.2    
78.6    
79.0    
79.4    
79.8    
80.2    
80.5    
80.9    
81.3    
81.7    
82.1    
82.4    
82.8    
83.2    
83.6    
84.0    
84.4    
84.7    
85.1    
85.5    
85.9    
86.3    
86.6    
87.0    
87.4    
87.8    
88.2    
88.5    
88.9    
89.3    
89.7    
90.1    
90.5    
90.8    
91.2    
91.6    
92.0    
92.4    
92.7    
93.1    
93.5    
93.9    
94.3    
94.7    
95.0    
95.4    
95.8    
96.2    
96.6    
96.9    
97.3    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 42 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 38 predictions persist after filtering for low support