-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_2/scaffold_2_6913489-7096717

-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.g2761.t1
Valid prediction for Augustus_model.g2755.t1
Valid prediction for snap_scaffold_2-snap.1541-T1
Valid prediction for GlimmerHMM_glimmerT_4118-T1
Valid prediction for snap_scaffold_2-snap.1529-T1
Valid prediction for GlimmerHMM_glimmerT_4102-T1
Valid prediction for GeneMark_model.6705_t
Valid prediction for GeneMark_model.6688_t
Valid prediction for GlimmerHMM_glimmerT_4104-T1
Valid prediction for GlimmerHMM_glimmerT_4124-T1
Valid prediction for snap_scaffold_2-snap.1516-T1
Valid prediction for snap_scaffold_2-snap.1539-T1
Valid prediction for snap_scaffold_2-snap.1544-T1
Valid prediction for snap_scaffold_2-snap.1542-T1
Valid prediction for snap_scaffold_2-snap.1538-T1
Valid prediction for Augustus_model.g2739.t1
Valid prediction for Augustus_model.g2740.t1
Valid prediction for snap_scaffold_2-snap.1536-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_4121-T1
Valid prediction for GlimmerHMM_glimmerT_4105-T1
Valid prediction for snap_scaffold_2-snap.1518-T1
Valid prediction for GeneMark_model.6699_t
Valid prediction for snap_scaffold_2-snap.1543-T1
Valid prediction for GeneMark_model.6701_t
Valid prediction for GeneMark_model.6693_t
Valid prediction for snap_scaffold_2-snap.1521-T1
Valid prediction for GeneMark_model.6691_t
Valid prediction for GlimmerHMM_glimmerT_4117-T1
Valid prediction for GlimmerHMM_glimmerT_4122-T1
Valid prediction for Augustus_model.g2758.t1
Valid prediction for GeneMark_model.6674_t
Valid prediction for GeneMark_model.6702_t
Valid prediction for GeneMark_model.6700_t
Valid prediction for snap_scaffold_2-snap.1520-T1
Valid prediction for snap_scaffold_2-snap.1532-T1
Valid prediction for Augustus_model.g2751.t1
Valid prediction for snap_scaffold_2-snap.1519-T1
Valid prediction for Augustus_model.g2754.t1
Valid prediction for GeneMark_model.6676_t
Valid prediction for GlimmerHMM_glimmerT_4123-T1
Valid prediction for Augustus_model.g2757.t1
Valid prediction for GlimmerHMM_glimmerT_4125-T1
Valid prediction for Augustus_model.g2753.t1
Valid prediction for Augustus_model.g2759.t1
Valid prediction for GlimmerHMM_glimmerT_4112-T1
Valid prediction for GeneMark_model.6679_t
Valid prediction for GeneMark_model.6696_t
Valid prediction for Augustus_model.g2748.t1
Valid prediction for Augustus_model.g2760.t1
Valid prediction for snap_scaffold_2-snap.1540-T1
Valid prediction for GlimmerHMM_glimmerT_4108-T1
Valid prediction for GlimmerHMM_glimmerT_4115-T1
Valid prediction for Augustus_model.g2736.t1
Valid prediction for CodingQuarry_transcript_28540-T1
Valid prediction for GlimmerHMM_glimmerT_4120-T1
Valid prediction for GeneMark_model.6682_t
Valid prediction for Augustus_model.g2738.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 GeneMark_model.6683_t
Valid prediction for GeneMark_model.6692_t
Valid prediction for Augustus_model.g2749.t1
Valid prediction for GeneMark_model.6687_t
Valid prediction for GeneMark_model.6680_t
Valid prediction for snap_scaffold_2-snap.1530-T1
Valid prediction for snap_scaffold_2-snap.1515-T1
Valid prediction for GeneMark_model.6704_t
Valid prediction for Augustus_model.g2744.t1
Valid prediction for Augustus_model.g2750.t1
Valid prediction for GeneMark_model.6686_t
Valid prediction for GeneMark_model.6690_t
Valid prediction for GeneMark_model.6678_t
Valid prediction for snap_scaffold_2-snap.1528-T1
Valid prediction for GeneMark_model.6695_t
Valid prediction for GlimmerHMM_glimmerT_4114-T1
Valid prediction for GeneMark_model.6675_t
Valid prediction for Augustus_model.g2743.t1
Valid prediction for snap_scaffold_2-snap.1514-T1
Valid prediction for snap_scaffold_2-snap.1522-T1
Valid prediction for Augustus_model.g2756.t1
Valid prediction for GeneMark_model.6685_t
Valid prediction for GeneMark_model.6697_t
Valid prediction for GeneMark_model.6684_t
Valid prediction for GlimmerHMM_glimmerT_4119-T1
Valid prediction for GeneMark_model.6694_t
Valid prediction for GeneMark_model.6689_t
Valid prediction for GeneMark_model.6698_t
Valid prediction for GlimmerHMM_glimmerT_4106-T1
Valid prediction for GlimmerHMM_glimmerT_4113-T1
Valid prediction for GlimmerHMM_glimmerT_4111-T1
Valid prediction for snap_scaffold_2-snap.1535-T1
Valid prediction for Augustus_model.g2742.t1
Valid prediction for snap_scaffold_2-snap.1531-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_2-snap.1517-T1
Valid prediction for GlimmerHMM_glimmerT_4116-T1
Valid prediction for Augustus_model.g2745.t1
Valid prediction for snap_scaffold_2-snap.1533-T1
Valid prediction for snap_scaffold_2-snap.1523-T1
Valid prediction for Augustus_model.g2752.t1
Valid prediction for Augustus_model.g2737.t1
Valid prediction for snap_scaffold_2-snap.1527-T1
Valid prediction for GlimmerHMM_glimmerT_4103-T1
Valid prediction for snap_scaffold_2-snap.1524-T1
Valid prediction for snap_scaffold_2-snap.1525-T1
Valid prediction for Augustus_model.g2741.t1
Valid prediction for GlimmerHMM_glimmerT_4109-T1
Valid prediction for snap_scaffold_2-snap.1526-T1
Valid prediction for GlimmerHMM_glimmerT_4110-T1
Valid prediction for GlimmerHMM_glimmerT_4107-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_2-snap.1534-T1
Valid prediction for snap_scaffold_2-snap.1537-T1
Sorry, intron length (4) is less than minimum required (10)
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g2746.t1
Valid prediction for Augustus_model.g2747.t1

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

-building trellis in range 1 - 183229
-exon list size: 361


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
1.9    
2.2    
2.5    
2.8    
3.0    
3.3    
3.6    
3.9    
4.1    
4.4    
4.7    
5.0    
5.2    
5.5    
5.8    
6.1    
6.3    
6.6    
6.9    
7.2    
7.4    
7.7    
8.0    
8.3    
8.5    
8.8    
9.1    
9.4    
9.6    
9.9    
10.2    
10.5    
10.7    
11.0    
11.3    
11.6    
11.8    
12.1    
12.4    
12.7    
12.9    
13.2    
13.5    
13.8    
14.0    
14.3    
14.6    
14.9    
15.2    
15.4    
15.7    
16.0    
16.3    
16.5    
16.8    
17.1    
17.4    
17.6    
17.9    
18.2    
18.5    
18.7    
19.0    
19.3    
19.6    
19.8    
20.1    
20.4    
20.7    
20.9    
21.2    
21.5    
21.8    
22.0    
22.3    
22.6    
22.9    
23.1    
23.4    
23.7    
24.0    
24.2    
24.5    
24.8    
25.1    
25.3    
25.6    
25.9    
26.2    
26.4    
26.7    
27.0    
27.3    
27.5    
27.8    
28.1    
28.4    
28.7    
28.9    
29.2    
29.5    
29.8    
30.0    
30.3    
30.6    
30.9    
31.1    
31.4    
31.7    
32.0    
32.2    
32.5    
32.8    
33.1    
33.3    
33.6    
33.9    
34.2    
34.4    
34.7    
35.0    
35.3    
35.5    
35.8    
36.1    
36.4    
36.6    
36.9    
37.2    
37.5    
37.7    
38.0    
38.3    
38.6    
38.8    
39.1    
39.4    
39.7    
39.9    
40.2    
40.5    
40.8    
41.0    
41.3    
41.6    
41.9    
42.1    
42.4    
42.7    
43.0    
43.3    
43.5    
43.8    
44.1    
44.4    
44.6    
44.9    
45.2    
45.5    
45.7    
46.0    
46.3    
46.6    
46.8    
47.1    
47.4    
47.7    
47.9    
48.2    
48.5    
48.8    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.2    
51.5    
51.8    
52.1    
52.3    
52.6    
52.9    
53.2    
53.4    
53.7    
54.0    
54.3    
54.5    
54.8    
55.1    
55.4    
55.6    
55.9    
56.2    
56.5    
56.7    
57.0    
57.3    
57.6    
57.9    
58.1    
58.4    
58.7    
59.0    
59.2    
59.5    
59.8    
60.1    
60.3    
60.6    
60.9    
61.2    
61.4    
61.7    
62.0    
62.3    
62.5    
62.8    
63.1    
63.4    
63.6    
63.9    
64.2    
64.5    
64.7    
65.0    
65.3    
65.6    
65.8    
66.1    
66.4    
66.7    
66.9    
67.2    
67.5    
67.8    
68.0    
68.3    
68.6    
68.9    
69.1    
69.4    
69.7    
70.0    
70.2    
70.5    
70.8    
71.1    
71.3    
71.6    
71.9    
72.2    
72.5    
72.7    
73.0    
73.3    
73.6    
73.8    
74.1    
74.4    
74.7    
74.9    
75.2    
75.5    
75.8    
76.0    
76.3    
76.6    
76.9    
77.1    
77.4    
77.7    
78.0    
78.2    
78.5    
78.8    
79.1    
79.3    
79.6    
79.9    
80.2    
80.4    
80.7    
81.0    
81.3    
81.5    
81.8    
82.1    
82.4    
82.6    
82.9    
83.2    
83.5    
83.7    
84.0    
84.3    
84.6    
84.8    
85.1    
85.4    
85.7    
86.0    
86.2    
86.5    
86.8    
87.1    
87.3    
87.6    
87.9    
88.2    
88.4    
88.7    
89.0    
89.3    
89.5    
89.8    
90.1    
90.4    
90.6    
90.9    
91.2    
91.5    
91.7    
92.0    
92.3    
92.6    
92.8    
93.1    
93.4    
93.7    
93.9    
94.2    
94.5    
94.8    
95.0    
95.3    
95.6    
95.9    
96.1    
96.4    
96.7    
97.0    
97.2    
97.5    
97.8    
98.1    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 36 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 33 predictions persist after filtering for low support