-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_20/scaffold_20_11225771-11413591

-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: +)Couldn't classify 165064, 165091
Couldn't classify 165601, 165753
Sorry, prediction pasa_asmbl_26195.p1 fails validation.
(GCC)	 AA	165064-165091	GT	CAG
(AGT)	 AG	165274-165473	GT	AGG
(GAT)	 AG	165601-165753	GT	CTG
-recovered pasa_asmbl_26195.p1, internal, 165274, 165473
-recovered pasa_asmbl_26195.p1, internal, 165601, 165753
Valid prediction for Augustus_model.g32047.t1
Valid prediction for GeneMark_model.83593_t
Valid prediction for GlimmerHMM_glimmerT_47986-T1
Valid prediction for GlimmerHMM_glimmerT_47990-T1
Valid prediction for GeneMark_model.83616_t
Valid prediction for HiQ_model.g32068.t1
Valid prediction for GlimmerHMM_glimmerT_47989-T1
Valid prediction for Augustus_model.g32063.t1
Valid prediction for GeneMark_model.83595_t
Valid prediction for GeneMark_model.83605_t
Valid prediction for snap_scaffold_20-snap.2402-T1
Valid prediction for GeneMark_model.83598_t
Valid prediction for Augustus_model.g32061.t1
Valid prediction for snap_scaffold_20-snap.2404-T1
Valid prediction for GeneMark_model.83610_t
Valid prediction for snap_scaffold_20-snap.2415-T1
Valid prediction for GlimmerHMM_glimmerT_48002-T1
Valid prediction for snap_scaffold_20-snap.2392-T1
Valid prediction for Augustus_model.g32060.t1
Couldn't classify 64844, 64966
Couldn't classify 70282, 70315
Sorry, prediction pasa_asmbl_26183.p1 fails validation.
(GGA)	 CA	64844-64966	GT	AGG
(GCC)	 AG	65369-65476	GT	TGG
(AAT)	 AG	66156-66356	GT	AGG
(GTT)	 AG	67194-67290	GT	TGG
(GTG)	 AG	67380-67413	GT	AGG
(TAA)	 AG	70282-70315	CC	AGC
-recovered pasa_asmbl_26183.p1, internal, 65369, 65476
-recovered pasa_asmbl_26183.p1, internal, 66156, 66356
-recovered pasa_asmbl_26183.p1, internal, 67194, 67290
-recovered pasa_asmbl_26183.p1, internal, 67380, 67413
Valid prediction for GlimmerHMM_glimmerT_47996-T1
Valid prediction for GeneMark_model.83603_t
Valid prediction for Augustus_model.g32065.t1
Valid prediction for Augustus_model.g32059.t1
Valid prediction for snap_scaffold_20-snap.2406-T1
Valid prediction for GlimmerHMM_glimmerT_48003-T1
Valid prediction for snap_scaffold_20-snap.2410-T1
Valid prediction for Augustus_model.g32057.t1
Valid prediction for Augustus_model.g32048.t1
Valid prediction for snap_scaffold_20-snap.2391-T1
Valid prediction for GeneMark_model.83606_t
Valid prediction for CodingQuarry_transcript_30605-T1
Valid prediction for HiQ_model.g32049.t1
Valid prediction for GlimmerHMM_glimmerT_48009-T1
Valid prediction for GlimmerHMM_glimmerT_48000-T1
Valid prediction for Augustus_model.g32056.t1
Valid prediction for GeneMark_model.83591_t
Couldn't classify 113007, 113141
Couldn't classify 115643, 115861
Sorry, prediction pasa_asmbl_26381.p1 fails validation.
(ATT)	 AG	113007-113141	GT	TGG
(TCA)	 AG	115643-115861	GG	AAG
-recovered pasa_asmbl_26381.p1, internal, 113007, 113141
Valid prediction for GeneMark_model.83607_t
Valid prediction for snap_scaffold_20-snap.2403-T1
Valid prediction for snap_scaffold_20-snap.2407-T1
Valid prediction for snap_scaffold_20-snap.2390-T1
Valid prediction for snap_scaffold_20-snap.2405-T1
Valid prediction for snap_scaffold_20-snap.2408-T1
Valid prediction for Augustus_model.g32051.t1
Valid prediction for GlimmerHMM_glimmerT_47991-T1
Valid prediction for snap_scaffold_20-snap.2394-T1
Valid prediction for GeneMark_model.83592_t
Valid prediction for Augustus_model.g32045.t1
Valid prediction for snap_scaffold_20-snap.2416-T1
Valid prediction for Augustus_model.g32062.t1
Valid prediction for GeneMark_model.83609_t
Valid prediction for GlimmerHMM_glimmerT_48005-T1
Valid prediction for Augustus_model.g32043.t1
Valid prediction for HiQ_model.g32067.t1
Valid prediction for snap_scaffold_20-snap.2398-T1
Valid prediction for snap_scaffold_20-snap.2393-T1
Valid prediction for GeneMark_model.83608_t
Valid prediction for GlimmerHMM_glimmerT_47998-T1
Valid prediction for Augustus_model.g32041.t1
Valid prediction for GlimmerHMM_glimmerT_48006-T1
Valid prediction for pasa_asmbl_26196.p1
Valid prediction for snap_scaffold_20-snap.2411-T1
Valid prediction for snap_scaffold_20-snap.2399-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.g32052.t1
Valid prediction for GlimmerHMM_glimmerT_47994-T1
Valid prediction for snap_scaffold_20-snap.2397-T1
Valid prediction for Augustus_model.g32046.t1
Valid prediction for snap_scaffold_20-snap.2395-T1
Valid prediction for GeneMark_model.83613_t
Valid prediction for GlimmerHMM_glimmerT_47995-T1
Valid prediction for GeneMark_model.83594_t
Valid prediction for Augustus_model.g32042.t1
Valid prediction for Augustus_model.g32066.t1
Valid prediction for GlimmerHMM_glimmerT_48001-T1
Valid prediction for GeneMark_model.83599_t
Valid prediction for GlimmerHMM_glimmerT_47992-T1
Valid prediction for GlimmerHMM_glimmerT_47988-T1
Valid prediction for Augustus_model.g32064.t1
Valid prediction for GlimmerHMM_glimmerT_48008-T1
Valid prediction for GeneMark_model.83597_t
Valid prediction for GeneMark_model.83617_t
Valid prediction for GeneMark_model.83612_t
Valid prediction for GlimmerHMM_glimmerT_47985-T1
Valid prediction for GlimmerHMM_glimmerT_48007-T1
Valid prediction for GeneMark_model.83615_t
Valid prediction for Augustus_model.g32055.t1
Valid prediction for snap_scaffold_20-snap.2400-T1
Valid prediction for GeneMark_model.83602_t
Valid prediction for GlimmerHMM_glimmerT_48004-T1
Valid prediction for snap_scaffold_20-snap.2414-T1
Valid prediction for snap_scaffold_20-snap.2417-T1
Valid prediction for snap_scaffold_20-snap.2418-T1
Valid prediction for GlimmerHMM_glimmerT_47999-T1
Valid prediction for GlimmerHMM_glimmerT_47993-T1
Valid prediction for Augustus_model.g32058.t1
Valid prediction for GlimmerHMM_glimmerT_47987-T1
Valid prediction for snap_scaffold_20-snap.2412-T1
Valid prediction for Augustus_model.g32053.t1
Valid prediction for GeneMark_model.83614_t
Valid prediction for GeneMark_model.83601_t
Valid prediction for snap_scaffold_20-snap.2401-T1
Valid prediction for GeneMark_model.83596_t
Valid prediction for Augustus_model.g32040.t1
Valid prediction for snap_scaffold_20-snap.2389-T1
Valid prediction for snap_scaffold_20-snap.2396-T1
Couldn't classify 143613, 144386
Sorry, prediction pasa_asmbl_26178.p1 fails validation.
(GAC)	 GC	143613-144386	CC	GGC
Valid prediction for GeneMark_model.83604_t
Valid prediction for Augustus_model.g32050.t1
Valid prediction for Augustus_model.g32044.t1
Valid prediction for snap_scaffold_20-snap.2409-T1
Valid prediction for Augustus_model.g32054.t1
Valid prediction for GlimmerHMM_glimmerT_47997-T1
Valid prediction for snap_scaffold_20-snap.2413-T1

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

-building trellis in range 1 - 187821
-exon list size: 318


building trellis

0.3    
0.6    
0.9    
1.2    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.6    
5.9    
6.2    
6.6    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.8    
9.1    
9.4    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.8    
19.1    
19.4    
19.7    
20.0    
20.3    
20.6    
20.9    
21.2    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
29.1    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.6    
31.9    
32.2    
32.5    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.6    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.8    
59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.5    
67.8    
68.1    
68.4    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.2    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.8    
79.1    
79.4    
79.7    
80.0    
80.3    
80.6    
80.9    
81.2    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.4    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.8    
99.1    
99.4    
99.7    
-found 32 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support