-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_18257365-18423745

-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_21358-T1
Valid prediction for snap_scaffold_8-snap.3379-T1
Valid prediction for GlimmerHMM_glimmerT_21366-T1
Valid prediction for Augustus_model.g14243.t1
Valid prediction for GlimmerHMM_glimmerT_21375-T1
Valid prediction for GlimmerHMM_glimmerT_21361-T1
Valid prediction for Augustus_model.g14247.t1
Valid prediction for Augustus_model.g14256.t1
Valid prediction for Augustus_model.g14244.t1
Valid prediction for GlimmerHMM_glimmerT_21380-T1
Valid prediction for snap_scaffold_8-snap.3391-T1
Valid prediction for Augustus_model.g14240.t1
Valid prediction for GlimmerHMM_glimmerT_21365-T1
Valid prediction for snap_scaffold_8-snap.3387-T1
Valid prediction for Augustus_model.g14232.t1
Valid prediction for GlimmerHMM_glimmerT_21381-T1
Valid prediction for snap_scaffold_8-snap.3386-T1
Valid prediction for Augustus_model.g14253.t1
Valid prediction for GlimmerHMM_glimmerT_21350-T1
Valid prediction for GlimmerHMM_glimmerT_21373-T1
Valid prediction for Augustus_model.g14252.t1
Valid prediction for GlimmerHMM_glimmerT_21359-T1
Valid prediction for snap_scaffold_8-snap.3375-T1
Valid prediction for snap_scaffold_8-snap.3380-T1
Valid prediction for GlimmerHMM_glimmerT_21353-T1
Valid prediction for CodingQuarry_transcript_59964-T1
Valid prediction for GlimmerHMM_glimmerT_21376-T1
Valid prediction for GlimmerHMM_glimmerT_21383-T1
Valid prediction for snap_scaffold_8-snap.3365-T1
Sorry, intron length (5) is less than minimum required (10)
Valid prediction for Augustus_model.g14255.t1
Valid prediction for snap_scaffold_8-snap.3376-T1
Valid prediction for GlimmerHMM_glimmerT_21367-T1
Valid prediction for snap_scaffold_8-snap.3366-T1
Valid prediction for GlimmerHMM_glimmerT_21372-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_21377-T1
Valid prediction for GlimmerHMM_glimmerT_21374-T1
Valid prediction for snap_scaffold_8-snap.3382-T1
Valid prediction for snap_scaffold_8-snap.3388-T1
Valid prediction for HiQ_model.g14258.t1
Valid prediction for snap_scaffold_8-snap.3372-T1
Valid prediction for CodingQuarry_transcript_59963-T1
Valid prediction for Augustus_model.g14245.t1
Valid prediction for snap_scaffold_8-snap.3373-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.3361-T1
Valid prediction for snap_scaffold_8-snap.3384-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.3377-T1
Valid prediction for pasa_asmbl_53544.p1
Valid prediction for GlimmerHMM_glimmerT_21368-T1
Valid prediction for Augustus_model.g14237.t1
Valid prediction for GlimmerHMM_glimmerT_21370-T1
Valid prediction for snap_scaffold_8-snap.3374-T1
Valid prediction for Augustus_model.g14236.t1
Valid prediction for Augustus_model.g14248.t1
Valid prediction for Augustus_model.g14238.t1
Valid prediction for snap_scaffold_8-snap.3369-T1
Valid prediction for snap_scaffold_8-snap.3378-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_8-snap.3383-T1
Valid prediction for Augustus_model.g14251.t1
Valid prediction for snap_scaffold_8-snap.3368-T1
Valid prediction for Augustus_model.g14242.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.g14235.t1
Couldn't classify 9675, 9806
Sorry, prediction pasa_asmbl_52535.p1 fails validation.
(GAG)	 CA	9675-9806	GT	AGG
(ACC)	 AG	10026-10334	GT	AGG
(GTT)	 AG	10924-11277	GA	GAG
-recovered pasa_asmbl_52535.p1, terminal, 10924, 11277
-recovered pasa_asmbl_52535.p1, internal, 10026, 10334
Valid prediction for Augustus_model.g14234.t1
Valid prediction for GlimmerHMM_glimmerT_21356-T1
Valid prediction for GlimmerHMM_glimmerT_21364-T1
Valid prediction for snap_scaffold_8-snap.3367-T1
Valid prediction for GlimmerHMM_glimmerT_21357-T1
Valid prediction for Augustus_model.g14246.t1
Valid prediction for GlimmerHMM_glimmerT_21355-T1
Valid prediction for GlimmerHMM_glimmerT_21352-T1
Valid prediction for snap_scaffold_8-snap.3363-T1
Valid prediction for GlimmerHMM_glimmerT_21378-T1
Valid prediction for Augustus_model.g14239.t1
Valid prediction for Augustus_model.g14250.t1
Valid prediction for snap_scaffold_8-snap.3362-T1
Valid prediction for snap_scaffold_8-snap.3359-T1
Valid prediction for GlimmerHMM_glimmerT_21379-T1
Valid prediction for snap_scaffold_8-snap.3360-T1
Couldn't classify 3445, 3446
Sorry, prediction CodingQuarry_transcript_59962-T1 fails validation.
(ATG)	 AA	3445-3446	GT	ATG
(GAA)	 AG	3667-3829	TT	GAT
-recovered CodingQuarry_transcript_59962-T1, terminal, 3667, 3829
Valid prediction for snap_scaffold_8-snap.3390-T1
Valid prediction for GlimmerHMM_glimmerT_21371-T1
Valid prediction for Augustus_model.g14230.t1
Valid prediction for snap_scaffold_8-snap.3371-T1
Valid prediction for Augustus_model.g14241.t1
Valid prediction for GlimmerHMM_glimmerT_21362-T1
Valid prediction for snap_scaffold_8-snap.3370-T1
Valid prediction for GlimmerHMM_glimmerT_21351-T1
Valid prediction for Augustus_model.g14233.t1
Valid prediction for GlimmerHMM_glimmerT_21382-T1
Valid prediction for GlimmerHMM_glimmerT_21369-T1
Valid prediction for GlimmerHMM_glimmerT_21360-T1
Valid prediction for GlimmerHMM_glimmerT_21363-T1
Valid prediction for snap_scaffold_8-snap.3389-T1
Valid prediction for Augustus_model.g14254.t1
Valid prediction for snap_scaffold_8-snap.3364-T1
Valid prediction for snap_scaffold_8-snap.3381-T1
Valid prediction for snap_scaffold_8-snap.3358-T1
Valid prediction for Augustus_model.g14257.t1
Valid prediction for Augustus_model.g14231.t1
Valid prediction for snap_scaffold_8-snap.3385-T1
Valid prediction for Augustus_model.g14249.t1
Valid prediction for GlimmerHMM_glimmerT_21354-T1

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

-building trellis in range 1 - 166381
-exon list size: 254


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.3    
2.7    
3.1    
3.5    
3.9    
4.3    
4.7    
5.1    
5.5    
5.9    
6.2    
6.6    
7.0    
7.4    
7.8    
8.2    
8.6    
9.0    
9.4    
9.8    
10.2    
10.5    
10.9    
11.3    
11.7    
12.1    
12.5    
12.9    
13.3    
13.7    
14.1    
14.5    
14.8    
15.2    
15.6    
16.0    
16.4    
16.8    
17.2    
17.6    
18.0    
18.4    
18.8    
19.1    
19.5    
19.9    
20.3    
20.7    
21.1    
21.5    
21.9    
22.3    
22.7    
23.0    
23.4    
23.8    
24.2    
24.6    
25.0    
25.4    
25.8    
26.2    
26.6    
27.0    
27.3    
27.7    
28.1    
28.5    
28.9    
29.3    
29.7    
30.1    
30.5    
30.9    
31.2    
31.6    
32.0    
32.4    
32.8    
33.2    
33.6    
34.0    
34.4    
34.8    
35.2    
35.5    
35.9    
36.3    
36.7    
37.1    
37.5    
37.9    
38.3    
38.7    
39.1    
39.5    
39.8    
40.2    
40.6    
41.0    
41.4    
41.8    
42.2    
42.6    
43.0    
43.4    
43.8    
44.1    
44.5    
44.9    
45.3    
45.7    
46.1    
46.5    
46.9    
47.3    
47.7    
48.0    
48.4    
48.8    
49.2    
49.6    
50.0    
50.4    
50.8    
51.2    
51.6    
52.0    
52.3    
52.7    
53.1    
53.5    
53.9    
54.3    
54.7    
55.1    
55.5    
55.9    
56.2    
56.6    
57.0    
57.4    
57.8    
58.2    
58.6    
59.0    
59.4    
59.8    
60.2    
60.5    
60.9    
61.3    
61.7    
62.1    
62.5    
62.9    
63.3    
63.7    
64.1    
64.5    
64.8    
65.2    
65.6    
66.0    
66.4    
66.8    
67.2    
67.6    
68.0    
68.4    
68.8    
69.1    
69.5    
69.9    
70.3    
70.7    
71.1    
71.5    
71.9    
72.3    
72.7    
73.0    
73.4    
73.8    
74.2    
74.6    
75.0    
75.4    
75.8    
76.2    
76.6    
77.0    
77.3    
77.7    
78.1    
78.5    
78.9    
79.3    
79.7    
80.1    
80.5    
80.9    
81.2    
81.6    
82.0    
82.4    
82.8    
83.2    
83.6    
84.0    
84.4    
84.8    
85.2    
85.5    
85.9    
86.3    
86.7    
87.1    
87.5    
87.9    
88.3    
88.7    
89.1    
89.5    
89.8    
90.2    
90.6    
91.0    
91.4    
91.8    
92.2    
92.6    
93.0    
93.4    
93.8    
94.1    
94.5    
94.9    
95.3    
95.7    
96.1    
96.5    
96.9    
97.3    
97.7    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 40 predictions from path traversal
GOT 5prime partial gene.

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