-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_55

-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 snap_scaffold_55-snap.2-T1
Valid prediction for Augustus_model.g39487.t1
Valid prediction for Augustus_model.g39484.t1
Valid prediction for snap_scaffold_55-snap.6-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_55-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_59599-T1
Valid prediction for GlimmerHMM_glimmerT_59598-T1
Valid prediction for GlimmerHMM_glimmerT_59600-T1
Valid prediction for Augustus_model.g39491.t1
Valid prediction for snap_scaffold_55-snap.9-T1
Valid prediction for GlimmerHMM_glimmerT_59607-T1
Valid prediction for GlimmerHMM_glimmerT_59604-T1
Valid prediction for snap_scaffold_55-snap.1-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_59603-T1
Valid prediction for snap_scaffold_55-snap.4-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_55-snap.7-T1
Valid prediction for snap_scaffold_55-snap.5-T1
Valid prediction for Augustus_model.g39488.t1
Valid prediction for Augustus_model.g39485.t1
Valid prediction for GlimmerHMM_glimmerT_59601-T1
Valid prediction for Augustus_model.g39486.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_59605-T1
Couldn't classify 312, 443
Sorry, prediction GlimmerHMM_glimmerT_59608-T1 fails validation.
(CTG)	 AG	312-443	GT	AGG
(TTT)	 AG	785-876	GT	AGG
(GTG)	 AG	1001-1105	GT	CTG
(GAA)	 AG	1204-1276	GT	AGG
(GCT)	 AG	1406-1535	GT	AAG
(GCG)	 AG	1699-1754	GT	CTG
(CAA)	 AG	2917-3056	TA	GAT
-recovered GlimmerHMM_glimmerT_59608-T1, terminal, 2917, 3056
-recovered GlimmerHMM_glimmerT_59608-T1, internal, 312, 443
-recovered GlimmerHMM_glimmerT_59608-T1, internal, 785, 876
-recovered GlimmerHMM_glimmerT_59608-T1, internal, 1001, 1105
-recovered GlimmerHMM_glimmerT_59608-T1, internal, 1204, 1276
-recovered GlimmerHMM_glimmerT_59608-T1, internal, 1406, 1535
-recovered GlimmerHMM_glimmerT_59608-T1, internal, 1699, 1754
Valid prediction for Augustus_model.g39492.t1
Valid prediction for snap_scaffold_55-snap.10-T1
Valid prediction for Augustus_model.g39489.t1
Valid prediction for snap_scaffold_55-snap.8-T1
Valid prediction for GlimmerHMM_glimmerT_59606-T1
Valid prediction for GlimmerHMM_glimmerT_59602-T1
Valid prediction for Augustus_model.g39490.t1

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

-building trellis in range 1 - 26217
-exon list size: 84


building trellis

1.2    
2.3    
3.5    
4.7    
5.8    
7.0    
8.1    
9.3    
10.5    
11.6    
12.8    
14.0    
15.1    
16.3    
17.4    
18.6    
19.8    
20.9    
22.1    
23.3    
24.4    
25.6    
26.7    
27.9    
29.1    
30.2    
31.4    
32.6    
33.7    
34.9    
36.0    
37.2    
38.4    
39.5    
40.7    
41.9    
43.0    
44.2    
45.3    
46.5    
47.7    
48.8    
50.0    
51.2    
52.3    
53.5    
54.7    
55.8    
57.0    
58.1    
59.3    
60.5    
61.6    
62.8    
64.0    
65.1    
66.3    
67.4    
68.6    
69.8    
70.9    
72.1    
73.3    
74.4    
75.6    
76.7    
77.9    
79.1    
80.2    
81.4    
82.6    
83.7    
84.9    
86.0    
87.2    
88.4    
89.5    
90.7    
91.9    
93.0    
94.2    
95.3    
96.5    
97.7    
98.8    
-found 12 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support