-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_361932-532764

-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.g15972.t1
Valid prediction for snap_scaffold_10-snap.109-T1
Valid prediction for snap_scaffold_10-snap.121-T1
Valid prediction for snap_scaffold_10-snap.94-T1
Valid prediction for snap_scaffold_10-snap.113-T1
Valid prediction for Augustus_model.g15961.t1
Valid prediction for GlimmerHMM_glimmerT_23967-T1
Valid prediction for GlimmerHMM_glimmerT_23968-T1
Valid prediction for snap_scaffold_10-snap.111-T1
Valid prediction for Augustus_model.g15954.t1
Valid prediction for snap_scaffold_10-snap.114-T1
Valid prediction for Augustus_model.g15973.t1
Valid prediction for Augustus_model.g15970.t1
Valid prediction for snap_scaffold_10-snap.108-T1
Valid prediction for snap_scaffold_10-snap.87-T1
Valid prediction for GlimmerHMM_glimmerT_23970-T1
Valid prediction for snap_scaffold_10-snap.85-T1
Valid prediction for snap_scaffold_10-snap.95-T1
Valid prediction for Augustus_model.g15967.t1
Valid prediction for pasa_asmbl_2853.p1
Valid prediction for Augustus_model.g15971.t1
Valid prediction for GlimmerHMM_glimmerT_23948-T1
Valid prediction for snap_scaffold_10-snap.84-T1
Valid prediction for GlimmerHMM_glimmerT_23954-T1
Valid prediction for GlimmerHMM_glimmerT_23973-T1
Valid prediction for Augustus_model.g15968.t1
Valid prediction for Augustus_model.g15952.t1
Couldn't classify 50728, 51069
Sorry, prediction pasa_asmbl_2855.p1 fails validation.
(CAG)	 TG	50728-51069	AC	GGA
Valid prediction for snap_scaffold_10-snap.96-T1
Valid prediction for snap_scaffold_10-snap.97-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_23947-T1
Valid prediction for snap_scaffold_10-snap.82-T1
Valid prediction for GlimmerHMM_glimmerT_23951-T1
Valid prediction for GlimmerHMM_glimmerT_23972-T1
Valid prediction for GlimmerHMM_glimmerT_23975-T1
Valid prediction for Augustus_model.g15953.t1
Valid prediction for snap_scaffold_10-snap.115-T1
Valid prediction for snap_scaffold_10-snap.116-T1
Valid prediction for snap_scaffold_10-snap.110-T1
Valid prediction for GlimmerHMM_glimmerT_23961-T1
Valid prediction for GlimmerHMM_glimmerT_23971-T1
Valid prediction for snap_scaffold_10-snap.81-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 CodingQuarry_transcript_5248-T1
Valid prediction for Augustus_model.g15964.t1
Valid prediction for GlimmerHMM_glimmerT_23952-T1
Valid prediction for snap_scaffold_10-snap.80-T1
Valid prediction for snap_scaffold_10-snap.101-T1
Valid prediction for snap_scaffold_10-snap.79-T1
Valid prediction for Augustus_model.g15965.t1
Valid prediction for Augustus_model.g15956.t1
Valid prediction for snap_scaffold_10-snap.98-T1
Valid prediction for Augustus_model.g15978.t1
Valid prediction for Augustus_model.g15957.t1
Valid prediction for snap_scaffold_10-snap.83-T1
Valid prediction for snap_scaffold_10-snap.92-T1
Valid prediction for snap_scaffold_10-snap.112-T1
Couldn't classify 27481, 28569
Sorry, prediction pasa_asmbl_3953.p1 fails validation.
(CTA)	 GG	27481-28569	CC	GAC
Valid prediction for Augustus_model.g15962.t1
Valid prediction for Augustus_model.g15960.t1
Valid prediction for snap_scaffold_10-snap.122-T1
Valid prediction for Augustus_model.g15969.t1
Valid prediction for Augustus_model.g15959.t1
Valid prediction for GlimmerHMM_glimmerT_23949-T1
Valid prediction for snap_scaffold_10-snap.90-T1
Valid prediction for snap_scaffold_10-snap.106-T1
Valid prediction for snap_scaffold_10-snap.119-T1
Valid prediction for GlimmerHMM_glimmerT_23958-T1
Valid prediction for snap_scaffold_10-snap.86-T1
Couldn't classify 23303, 23719
Sorry, prediction pasa_asmbl_3954.p1 fails validation.
(GAA)	 AG	23303-23719	GG	GTG
Valid prediction for Augustus_model.g15950.t1
Valid prediction for GlimmerHMM_glimmerT_23946-T1
Couldn't classify 1137, 1431
Sorry, prediction pasa_asmbl_3955.p1 fails validation.
(ACT)	 AC	1137-1431	GT	AGG
(CTC)	 AG	3062-3187	GT	GCG
(ACA)	 AG	3301-3491	GT	AGG
(GTG)	 AG	3624-3814	GT	ATG
(GCT)	 AG	3986-4202	AA	AAA
-recovered pasa_asmbl_3955.p1, terminal, 3986, 4202
-recovered pasa_asmbl_3955.p1, internal, 3062, 3187
-recovered pasa_asmbl_3955.p1, internal, 3301, 3491
-recovered pasa_asmbl_3955.p1, internal, 3624, 3814
Valid prediction for GlimmerHMM_glimmerT_23960-T1
Valid prediction for GlimmerHMM_glimmerT_23944-T1
Valid prediction for CodingQuarry_transcript_5249-T1
Valid prediction for Augustus_model.g15975.t1
Valid prediction for GlimmerHMM_glimmerT_23957-T1
Valid prediction for Augustus_model.g15963.t1
Valid prediction for snap_scaffold_10-snap.105-T1
Valid prediction for snap_scaffold_10-snap.120-T1
Valid prediction for GlimmerHMM_glimmerT_23966-T1
Valid prediction for CodingQuarry_transcript_5247-T1
Valid prediction for snap_scaffold_10-snap.118-T1
Valid prediction for Augustus_model.g15958.t1
Valid prediction for Augustus_model.g15966.t1
Valid prediction for Augustus_model.g15955.t1
Valid prediction for GlimmerHMM_glimmerT_23964-T1
Valid prediction for GlimmerHMM_glimmerT_23955-T1
Valid prediction for GlimmerHMM_glimmerT_23953-T1
Valid prediction for snap_scaffold_10-snap.100-T1
Valid prediction for snap_scaffold_10-snap.93-T1
Valid prediction for HiQ_model.g15951.t1
Valid prediction for GlimmerHMM_glimmerT_23959-T1
Valid prediction for GlimmerHMM_glimmerT_23956-T1
Valid prediction for GlimmerHMM_glimmerT_23962-T1
Valid prediction for snap_scaffold_10-snap.104-T1
Valid prediction for GlimmerHMM_glimmerT_23974-T1
Valid prediction for GlimmerHMM_glimmerT_23976-T1
Couldn't classify 68388, 68837
Sorry, prediction pasa_asmbl_3952.p1 fails validation.
(GCA)	 GG	68388-68837	CA	CAC
Valid prediction for Augustus_model.g15976.t1
Valid prediction for snap_scaffold_10-snap.78-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_23965-T1
Valid prediction for snap_scaffold_10-snap.107-T1
Valid prediction for pasa_asmbl_3947.p1
Valid prediction for snap_scaffold_10-snap.91-T1
Valid prediction for GlimmerHMM_glimmerT_23950-T1
Valid prediction for snap_scaffold_10-snap.99-T1
Valid prediction for GlimmerHMM_glimmerT_23969-T1
Valid prediction for GlimmerHMM_glimmerT_23963-T1
Valid prediction for snap_scaffold_10-snap.102-T1
Valid prediction for snap_scaffold_10-snap.103-T1
Valid prediction for Augustus_model.g15974.t1
Valid prediction for snap_scaffold_10-snap.88-T1
Valid prediction for snap_scaffold_10-snap.89-T1
Valid prediction for GlimmerHMM_glimmerT_23945-T1
Valid prediction for snap_scaffold_10-snap.117-T1
Valid prediction for Augustus_model.g15977.t1

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

-building trellis in range 1 - 170833
-exon list size: 320


building trellis

0.3    
0.6    
0.9    
1.2    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.6    
10.9    
11.2    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.4    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
86.6    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.8    
99.1    
99.4    
99.7    
-found 44 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 44 predictions persist after filtering for low support