-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_1133616-1356520

-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_33260-T1
Valid prediction for Augustus_model.g22212.t1
Valid prediction for GlimmerHMM_glimmerT_33268-T1
Valid prediction for snap_scaffold_14-snap.196-T1
Valid prediction for snap_scaffold_14-snap.213-T1
Couldn't classify 211670, 211831
Sorry, prediction pasa_asmbl_11823.p1 fails validation.
(AAG)	 CA	211670-211831	GT	AGG
(GGT)	 AG	211908-212085	GT	AGG
(GTG)	 AG	214102-214322	AT	AAA
-recovered pasa_asmbl_11823.p1, terminal, 214102, 214322
-recovered pasa_asmbl_11823.p1, internal, 211908, 212085
Valid prediction for snap_scaffold_14-snap.184-T1
Valid prediction for Augustus_model.g22219.t1
Valid prediction for snap_scaffold_14-snap.193-T1
Valid prediction for CodingQuarry_transcript_15552-T1
Valid prediction for HiQ_model.g22208.t1
Valid prediction for snap_scaffold_14-snap.197-T1
Valid prediction for GlimmerHMM_glimmerT_33243-T1
Valid prediction for Augustus_model.g22218.t1
Valid prediction for Augustus_model.g22230.t1
Valid prediction for GlimmerHMM_glimmerT_33264-T1
Valid prediction for GlimmerHMM_glimmerT_33244-T1
Valid prediction for snap_scaffold_14-snap.214-T1
Valid prediction for GlimmerHMM_glimmerT_33263-T1
Valid prediction for CodingQuarry_transcript_15547-T1
Valid prediction for GlimmerHMM_glimmerT_33262-T1
Valid prediction for Augustus_model.g22213.t1
Valid prediction for snap_scaffold_14-snap.211-T1
Valid prediction for GlimmerHMM_glimmerT_33249-T1
Valid prediction for GlimmerHMM_glimmerT_33247-T1
Valid prediction for CodingQuarry_transcript_15548-T1
Valid prediction for Augustus_model.g22209.t1
Valid prediction for Augustus_model.g22214.t1
Valid prediction for snap_scaffold_14-snap.194-T1
Valid prediction for Augustus_model.g22217.t1
Valid prediction for Augustus_model.g22234.t1
Valid prediction for snap_scaffold_14-snap.195-T1
Valid prediction for GlimmerHMM_glimmerT_33256-T1
Couldn't classify 177925, 178171
Sorry, prediction pasa_asmbl_11817.p1 fails validation.
(CAA)	 AG	177925-178171	GT	GTG
(ACT)	 AG	178257-178458	GT	TTG
(ACA)	 AG	178578-178653	GC	AGG
(GTG)	 AG	178752-178845	GT	AGG
(AGA)	 AG	179086-179297	AC	AAA
-recovered pasa_asmbl_11817.p1, terminal, 179086, 179297
-recovered pasa_asmbl_11817.p1, internal, 177925, 178171
-recovered pasa_asmbl_11817.p1, internal, 178257, 178458
-recovered pasa_asmbl_11817.p1, internal, 178578, 178653
-recovered pasa_asmbl_11817.p1, internal, 178752, 178845
Valid prediction for GlimmerHMM_glimmerT_33258-T1
Valid prediction for Augustus_model.g22229.t1
Valid prediction for GlimmerHMM_glimmerT_33266-T1
Valid prediction for snap_scaffold_14-snap.212-T1
Valid prediction for HiQ_model.g22227.t1
Valid prediction for snap_scaffold_14-snap.191-T1
Valid prediction for Augustus_model.g22232.t1
Valid prediction for snap_scaffold_14-snap.181-T1
Valid prediction for snap_scaffold_14-snap.210-T1
Valid prediction for Augustus_model.g22216.t1
Valid prediction for snap_scaffold_14-snap.199-T1
Valid prediction for HiQ_model.g22231.t1
Valid prediction for GlimmerHMM_glimmerT_33241-T1
Valid prediction for GlimmerHMM_glimmerT_33236-T1
Valid prediction for GlimmerHMM_glimmerT_33250-T1
Valid prediction for HiQ_model.g22236.t1
Valid prediction for snap_scaffold_14-snap.198-T1
Valid prediction for Augustus_model.g22224.t1
Valid prediction for snap_scaffold_14-snap.188-T1
Valid prediction for snap_scaffold_14-snap.209-T1
Valid prediction for snap_scaffold_14-snap.183-T1
Valid prediction for CodingQuarry_transcript_15549-T1
Valid prediction for Augustus_model.g22215.t1
Valid prediction for CodingQuarry_transcript_15550-T1
Valid prediction for GlimmerHMM_glimmerT_33242-T1
Valid prediction for GlimmerHMM_glimmerT_33245-T1
Valid prediction for snap_scaffold_14-snap.200-T1
Valid prediction for snap_scaffold_14-snap.189-T1
Valid prediction for snap_scaffold_14-snap.208-T1
Valid prediction for pasa_asmbl_11811.p1
Valid prediction for snap_scaffold_14-snap.192-T1
Valid prediction for pasa_asmbl_11820.p1
Valid prediction for CodingQuarry_transcript_15546-T1
Valid prediction for CodingQuarry_transcript_15551-T1
Valid prediction for snap_scaffold_14-snap.187-T1
Valid prediction for GlimmerHMM_glimmerT_33235-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.g22223.t1
Valid prediction for snap_scaffold_14-snap.206-T1
Valid prediction for GlimmerHMM_glimmerT_33237-T1
Valid prediction for GlimmerHMM_glimmerT_33261-T1
Valid prediction for snap_scaffold_14-snap.186-T1
Valid prediction for snap_scaffold_14-snap.182-T1
Valid prediction for GlimmerHMM_glimmerT_33267-T1
Valid prediction for snap_scaffold_14-snap.207-T1
Valid prediction for Augustus_model.g22237.t1
Valid prediction for GlimmerHMM_glimmerT_33253-T1
Valid prediction for Augustus_model.g22210.t1
Valid prediction for Augustus_model.g22222.t1
Valid prediction for GlimmerHMM_glimmerT_33255-T1
Valid prediction for GlimmerHMM_glimmerT_33265-T1
Valid prediction for snap_scaffold_14-snap.205-T1
Valid prediction for GlimmerHMM_glimmerT_33269-T1
Valid prediction for GlimmerHMM_glimmerT_33257-T1
Valid prediction for Augustus_model.g22225.t1
Valid prediction for Augustus_model.g22220.t1
Valid prediction for Augustus_model.g22235.t1
Valid prediction for GlimmerHMM_glimmerT_33252-T1
Valid prediction for GlimmerHMM_glimmerT_33254-T1
Valid prediction for GlimmerHMM_glimmerT_33246-T1
Valid prediction for Augustus_model.g22226.t1
Valid prediction for snap_scaffold_14-snap.202-T1
Valid prediction for snap_scaffold_14-snap.185-T1
Valid prediction for GlimmerHMM_glimmerT_33239-T1
Valid prediction for GlimmerHMM_glimmerT_33238-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g22221.t1
Valid prediction for snap_scaffold_14-snap.201-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33251-T1
Valid prediction for snap_scaffold_14-snap.215-T1
Valid prediction for Augustus_model.g22233.t1
Valid prediction for GlimmerHMM_glimmerT_33259-T1
Valid prediction for GlimmerHMM_glimmerT_33248-T1
Valid prediction for Augustus_model.g22228.t1
Valid prediction for snap_scaffold_14-snap.190-T1
Valid prediction for snap_scaffold_14-snap.204-T1
Valid prediction for pasa_asmbl_12865.p1
Valid prediction for snap_scaffold_14-snap.203-T1
Valid prediction for Augustus_model.g22211.t1
Valid prediction for GlimmerHMM_glimmerT_33240-T1

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

-building trellis in range 1 - 222905
-exon list size: 310


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.2    
2.6    
2.9    
3.2    
3.5    
3.8    
4.2    
4.5    
4.8    
5.1    
5.4    
5.8    
6.1    
6.4    
6.7    
7.1    
7.4    
7.7    
8.0    
8.3    
8.7    
9.0    
9.3    
9.6    
9.9    
10.3    
10.6    
10.9    
11.2    
11.5    
11.9    
12.2    
12.5    
12.8    
13.1    
13.5    
13.8    
14.1    
14.4    
14.7    
15.1    
15.4    
15.7    
16.0    
16.3    
16.7    
17.0    
17.3    
17.6    
17.9    
18.3    
18.6    
18.9    
19.2    
19.6    
19.9    
20.2    
20.5    
20.8    
21.2    
21.5    
21.8    
22.1    
22.4    
22.8    
23.1    
23.4    
23.7    
24.0    
24.4    
24.7    
25.0    
25.3    
25.6    
26.0    
26.3    
26.6    
26.9    
27.2    
27.6    
27.9    
28.2    
28.5    
28.8    
29.2    
29.5    
29.8    
30.1    
30.4    
30.8    
31.1    
31.4    
31.7    
32.1    
32.4    
32.7    
33.0    
33.3    
33.7    
34.0    
34.3    
34.6    
34.9    
35.3    
35.6    
35.9    
36.2    
36.5    
36.9    
37.2    
37.5    
37.8    
38.1    
38.5    
38.8    
39.1    
39.4    
39.7    
40.1    
40.4    
40.7    
41.0    
41.3    
41.7    
42.0    
42.3    
42.6    
42.9    
43.3    
43.6    
43.9    
44.2    
44.6    
44.9    
45.2    
45.5    
45.8    
46.2    
46.5    
46.8    
47.1    
47.4    
47.8    
48.1    
48.4    
48.7    
49.0    
49.4    
49.7    
50.0    
50.3    
50.6    
51.0    
51.3    
51.6    
51.9    
52.2    
52.6    
52.9    
53.2    
53.5    
53.8    
54.2    
54.5    
54.8    
55.1    
55.4    
55.8    
56.1    
56.4    
56.7    
57.1    
57.4    
57.7    
58.0    
58.3    
58.7    
59.0    
59.3    
59.6    
59.9    
60.3    
60.6    
60.9    
61.2    
61.5    
61.9    
62.2    
62.5    
62.8    
63.1    
63.5    
63.8    
64.1    
64.4    
64.7    
65.1    
65.4    
65.7    
66.0    
66.3    
66.7    
67.0    
67.3    
67.6    
67.9    
68.3    
68.6    
68.9    
69.2    
69.6    
69.9    
70.2    
70.5    
70.8    
71.2    
71.5    
71.8    
72.1    
72.4    
72.8    
73.1    
73.4    
73.7    
74.0    
74.4    
74.7    
75.0    
75.3    
75.6    
76.0    
76.3    
76.6    
76.9    
77.2    
77.6    
77.9    
78.2    
78.5    
78.8    
79.2    
79.5    
79.8    
80.1    
80.4    
80.8    
81.1    
81.4    
81.7    
82.1    
82.4    
82.7    
83.0    
83.3    
83.7    
84.0    
84.3    
84.6    
84.9    
85.3    
85.6    
85.9    
86.2    
86.5    
86.9    
87.2    
87.5    
87.8    
88.1    
88.5    
88.8    
89.1    
89.4    
89.7    
90.1    
90.4    
90.7    
91.0    
91.3    
91.7    
92.0    
92.3    
92.6    
92.9    
93.3    
93.6    
93.9    
94.2    
94.6    
94.9    
95.2    
95.5    
95.8    
96.2    
96.5    
96.8    
97.1    
97.4    
97.8    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 40 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 37 predictions persist after filtering for low support