-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_5/scaffold_5_19190636-19357434

-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.g9165.t1
Valid prediction for GlimmerHMM_glimmerT_13808-T1
Valid prediction for snap_scaffold_5-snap.3609-T1
Valid prediction for snap_scaffold_5-snap.3587-T1
Valid prediction for snap_scaffold_5-snap.3608-T1
Valid prediction for snap_scaffold_5-snap.3599-T1
Valid prediction for snap_scaffold_5-snap.3613-T1
Valid prediction for GlimmerHMM_glimmerT_13789-T1
Valid prediction for HiQ_model.g9168.t1
Valid prediction for Augustus_model.g9155.t1
Valid prediction for snap_scaffold_5-snap.3589-T1
Valid prediction for GlimmerHMM_glimmerT_13794-T1
Valid prediction for snap_scaffold_5-snap.3583-T1
Valid prediction for Augustus_model.g9156.t1
Valid prediction for Augustus_model.g9173.t1
Valid prediction for GlimmerHMM_glimmerT_13786-T1
Valid prediction for snap_scaffold_5-snap.3595-T1
Valid prediction for GlimmerHMM_glimmerT_13795-T1
Valid prediction for GlimmerHMM_glimmerT_13801-T1
Valid prediction for GlimmerHMM_glimmerT_13787-T1
Valid prediction for GlimmerHMM_glimmerT_13780-T1
Valid prediction for GlimmerHMM_glimmerT_13796-T1
Valid prediction for GlimmerHMM_glimmerT_13778-T1
Valid prediction for GlimmerHMM_glimmerT_13792-T1
Valid prediction for Augustus_model.g9163.t1
Valid prediction for Augustus_model.g9159.t1
Valid prediction for snap_scaffold_5-snap.3593-T1
Valid prediction for Augustus_model.g9174.t1
Valid prediction for Augustus_model.g9175.t1
Valid prediction for Augustus_model.g9164.t1
Valid prediction for GlimmerHMM_glimmerT_13810-T1
Valid prediction for GlimmerHMM_glimmerT_13775-T1
Valid prediction for snap_scaffold_5-snap.3582-T1
Couldn't classify 88481, 88608
Sorry, prediction pasa_asmbl_46312.p1 fails validation.
(ATG)	 AT	83477-83564	GT	TCG
(AGG)	 AG	86109-86237	GT	AGG
(GAA)	 AG	86337-86442	GT	ATG
(TGA)	 AG	86588-86657	GT	AGG
(GAG)	 AG	87142-87234	GT	AGG
(AAT)	 AG	87376-87439	GT	GGG
(GGA)	 AG	87566-87644	GT	AGG
(GAA)	 AG	87742-87820	GT	AGG
(GCC)	 AG	88028-88161	GT	AGG
(GGC)	 AG	88275-88369	GT	AGG
(GTG)	 AG	88481-88608	GT	AGG
-recovered pasa_asmbl_46312.p1, initial, 83477, 83564
-recovered pasa_asmbl_46312.p1, internal, 86109, 86237
-recovered pasa_asmbl_46312.p1, internal, 86337, 86442
-recovered pasa_asmbl_46312.p1, internal, 86588, 86657
-recovered pasa_asmbl_46312.p1, internal, 87142, 87234
-recovered pasa_asmbl_46312.p1, internal, 87376, 87439
-recovered pasa_asmbl_46312.p1, internal, 87566, 87644
-recovered pasa_asmbl_46312.p1, internal, 87742, 87820
-recovered pasa_asmbl_46312.p1, internal, 88028, 88161
-recovered pasa_asmbl_46312.p1, internal, 88275, 88369
-recovered pasa_asmbl_46312.p1, internal, 88481, 88608
Valid prediction for Augustus_model.g9180.t1
Valid prediction for Augustus_model.g9170.t1
Valid prediction for GlimmerHMM_glimmerT_13788-T1
Valid prediction for snap_scaffold_5-snap.3596-T1
Valid prediction for GlimmerHMM_glimmerT_13809-T1
Valid prediction for GlimmerHMM_glimmerT_13791-T1
Valid prediction for Augustus_model.g9162.t1
Valid prediction for GlimmerHMM_glimmerT_13807-T1
Valid prediction for Augustus_model.g9157.t1
Valid prediction for CodingQuarry_transcript_52486-T1
Valid prediction for snap_scaffold_5-snap.3584-T1
Valid prediction for snap_scaffold_5-snap.3591-T1
Valid prediction for Augustus_model.g9167.t1
Valid prediction for GlimmerHMM_glimmerT_13785-T1
Valid prediction for snap_scaffold_5-snap.3598-T1
Valid prediction for snap_scaffold_5-snap.3590-T1
Valid prediction for snap_scaffold_5-snap.3592-T1
Valid prediction for GlimmerHMM_glimmerT_13793-T1
Valid prediction for GlimmerHMM_glimmerT_13776-T1
Valid prediction for GlimmerHMM_glimmerT_13805-T1
Couldn't classify 20978, 21412
Sorry, prediction pasa_asmbl_45021.p1 fails validation.
(GTG)	 AT	20978-21412	GG	GGG
Valid prediction for GlimmerHMM_glimmerT_13783-T1
Valid prediction for GlimmerHMM_glimmerT_13802-T1
Valid prediction for GlimmerHMM_glimmerT_13797-T1
Valid prediction for Augustus_model.g9179.t1
Valid prediction for snap_scaffold_5-snap.3607-T1
Valid prediction for Augustus_model.g9169.t1
Valid prediction for GlimmerHMM_glimmerT_13784-T1
Valid prediction for GlimmerHMM_glimmerT_13803-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_13798-T1
Valid prediction for snap_scaffold_5-snap.3603-T1
Valid prediction for Augustus_model.g9160.t1
Valid prediction for snap_scaffold_5-snap.3616-T1
Valid prediction for GlimmerHMM_glimmerT_13777-T1
Valid prediction for snap_scaffold_5-snap.3601-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_5-snap.3615-T1
Valid prediction for snap_scaffold_5-snap.3588-T1
Valid prediction for snap_scaffold_5-snap.3614-T1
Valid prediction for Augustus_model.g9166.t1
Valid prediction for CodingQuarry_transcript_52487-T1
Valid prediction for snap_scaffold_5-snap.3605-T1
Valid prediction for snap_scaffold_5-snap.3612-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_13790-T1
Valid prediction for GlimmerHMM_glimmerT_13799-T1
Valid prediction for snap_scaffold_5-snap.3611-T1
Valid prediction for Augustus_model.g9172.t1
Valid prediction for Augustus_model.g9176.t1
Valid prediction for pasa_asmbl_44899.p1
Valid prediction for GlimmerHMM_glimmerT_13804-T1
Valid prediction for Augustus_model.g9178.t1
Valid prediction for GlimmerHMM_glimmerT_13774-T1
Valid prediction for snap_scaffold_5-snap.3594-T1
Valid prediction for HiQ_model.g9182.t1
Valid prediction for GlimmerHMM_glimmerT_13779-T1
Valid prediction for snap_scaffold_5-snap.3600-T1
Valid prediction for GlimmerHMM_glimmerT_13806-T1
Valid prediction for Augustus_model.g9177.t1
Valid prediction for snap_scaffold_5-snap.3602-T1
Valid prediction for HiQ_model.g9158.t1
Valid prediction for GlimmerHMM_glimmerT_13800-T1
Valid prediction for snap_scaffold_5-snap.3610-T1
Valid prediction for snap_scaffold_5-snap.3586-T1
Valid prediction for GlimmerHMM_glimmerT_13781-T1
Valid prediction for HiQ_model.g9181.t1
Valid prediction for GlimmerHMM_glimmerT_13782-T1
Valid prediction for snap_scaffold_5-snap.3606-T1
Valid prediction for snap_scaffold_5-snap.3581-T1
Valid prediction for snap_scaffold_5-snap.3597-T1
Valid prediction for snap_scaffold_5-snap.3604-T1
Valid prediction for snap_scaffold_5-snap.3585-T1
Valid prediction for GlimmerHMM_glimmerT_13811-T1
Valid prediction for Augustus_model.g9171.t1
Valid prediction for Augustus_model.g9161.t1
Valid prediction for snap_scaffold_5-snap.3617-T1

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

-building trellis in range 1 - 166799
-exon list size: 290


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.1    
2.4    
2.7    
3.1    
3.4    
3.8    
4.1    
4.5    
4.8    
5.1    
5.5    
5.8    
6.2    
6.5    
6.8    
7.2    
7.5    
7.9    
8.2    
8.6    
8.9    
9.2    
9.6    
9.9    
10.3    
10.6    
11.0    
11.3    
11.6    
12.0    
12.3    
12.7    
13.0    
13.4    
13.7    
14.0    
14.4    
14.7    
15.1    
15.4    
15.8    
16.1    
16.4    
16.8    
17.1    
17.5    
17.8    
18.2    
18.5    
18.8    
19.2    
19.5    
19.9    
20.2    
20.5    
20.9    
21.2    
21.6    
21.9    
22.3    
22.6    
22.9    
23.3    
23.6    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.4    
26.7    
27.1    
27.4    
27.7    
28.1    
28.4    
28.8    
29.1    
29.5    
29.8    
30.1    
30.5    
30.8    
31.2    
31.5    
31.8    
32.2    
32.5    
32.9    
33.2    
33.6    
33.9    
34.2    
34.6    
34.9    
35.3    
35.6    
36.0    
36.3    
36.6    
37.0    
37.3    
37.7    
38.0    
38.4    
38.7    
39.0    
39.4    
39.7    
40.1    
40.4    
40.8    
41.1    
41.4    
41.8    
42.1    
42.5    
42.8    
43.2    
43.5    
43.8    
44.2    
44.5    
44.9    
45.2    
45.5    
45.9    
46.2    
46.6    
46.9    
47.3    
47.6    
47.9    
48.3    
48.6    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.4    
51.7    
52.1    
52.4    
52.7    
53.1    
53.4    
53.8    
54.1    
54.5    
54.8    
55.1    
55.5    
55.8    
56.2    
56.5    
56.8    
57.2    
57.5    
57.9    
58.2    
58.6    
58.9    
59.2    
59.6    
59.9    
60.3    
60.6    
61.0    
61.3    
61.6    
62.0    
62.3    
62.7    
63.0    
63.4    
63.7    
64.0    
64.4    
64.7    
65.1    
65.4    
65.8    
66.1    
66.4    
66.8    
67.1    
67.5    
67.8    
68.2    
68.5    
68.8    
69.2    
69.5    
69.9    
70.2    
70.5    
70.9    
71.2    
71.6    
71.9    
72.3    
72.6    
72.9    
73.3    
73.6    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.4    
76.7    
77.1    
77.4    
77.7    
78.1    
78.4    
78.8    
79.1    
79.5    
79.8    
80.1    
80.5    
80.8    
81.2    
81.5    
81.8    
82.2    
82.5    
82.9    
83.2    
83.6    
83.9    
84.2    
84.6    
84.9    
85.3    
85.6    
86.0    
86.3    
86.6    
87.0    
87.3    
87.7    
88.0    
88.4    
88.7    
89.0    
89.4    
89.7    
90.1    
90.4    
90.8    
91.1    
91.4    
91.8    
92.1    
92.5    
92.8    
93.2    
93.5    
93.8    
94.2    
94.5    
94.9    
95.2    
95.5    
95.9    
96.2    
96.6    
96.9    
97.3    
97.6    
97.9    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 42 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 40 predictions persist after filtering for low support