-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_10/scaffold_10_13170229-13328555

-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_10-snap.2640-T1
Valid prediction for GeneMark_model.44929_t
Valid prediction for GlimmerHMM_glimmerT_26189-T1
Valid prediction for GeneMark_model.44930_t
Valid prediction for snap_scaffold_10-snap.2631-T1
Valid prediction for Augustus_model.g17579.t1
Valid prediction for snap_scaffold_10-snap.2607-T1
Valid prediction for GeneMark_model.44924_t
Valid prediction for snap_scaffold_10-snap.2615-T1
Valid prediction for GeneMark_model.44923_t
Valid prediction for GeneMark_model.44912_t
Valid prediction for GlimmerHMM_glimmerT_26192-T1
Valid prediction for snap_scaffold_10-snap.2629-T1
Valid prediction for HiQ_model.g17586.t1
Valid prediction for GeneMark_model.44939_t
Valid prediction for GlimmerHMM_glimmerT_26195-T1
Valid prediction for GlimmerHMM_glimmerT_26198-T1
Valid prediction for GeneMark_model.44954_t
Valid prediction for GlimmerHMM_glimmerT_26205-T1
Valid prediction for Augustus_model.g17575.t1
Valid prediction for snap_scaffold_10-snap.2644-T1
Valid prediction for GeneMark_model.44908_t
Valid prediction for GlimmerHMM_glimmerT_26200-T1
Valid prediction for GeneMark_model.44921_t
Valid prediction for snap_scaffold_10-snap.2606-T1
Valid prediction for snap_scaffold_10-snap.2624-T1
Valid prediction for GeneMark_model.44934_t
Valid prediction for GlimmerHMM_glimmerT_26197-T1
Valid prediction for GlimmerHMM_glimmerT_26203-T1
Valid prediction for Augustus_model.g17577.t1
Valid prediction for snap_scaffold_10-snap.2619-T1
Valid prediction for Augustus_model.g17583.t1
Valid prediction for CodingQuarry_transcript_5613-T1
Valid prediction for snap_scaffold_10-snap.2623-T1
Valid prediction for Augustus_model.g17571.t1
Valid prediction for Augustus_model.g17573.t1
Valid prediction for GeneMark_model.44937_t
Valid prediction for GlimmerHMM_glimmerT_26206-T1
Valid prediction for GlimmerHMM_glimmerT_26187-T1
Valid prediction for Augustus_model.g17585.t1
Valid prediction for GeneMark_model.44916_t
Valid prediction for snap_scaffold_10-snap.2605-T1
Valid prediction for snap_scaffold_10-snap.2626-T1
Valid prediction for snap_scaffold_10-snap.2634-T1
Valid prediction for GeneMark_model.44927_t
Valid prediction for snap_scaffold_10-snap.2641-T1
Valid prediction for GeneMark_model.44948_t
Valid prediction for GeneMark_model.44932_t
Valid prediction for GeneMark_model.44906_t
Valid prediction for snap_scaffold_10-snap.2610-T1
Valid prediction for snap_scaffold_10-snap.2616-T1
Valid prediction for GeneMark_model.44919_t
Valid prediction for GeneMark_model.44946_t
Valid prediction for Augustus_model.g17570.t1
Valid prediction for snap_scaffold_10-snap.2618-T1
Valid prediction for pasa_asmbl_4863.p1
Valid prediction for GeneMark_model.44914_t
Valid prediction for snap_scaffold_10-snap.2636-T1
Valid prediction for snap_scaffold_10-snap.2621-T1
Valid prediction for snap_scaffold_10-snap.2632-T1
Valid prediction for GlimmerHMM_glimmerT_26193-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.g17581.t1
Valid prediction for Augustus_model.g17572.t1
Valid prediction for snap_scaffold_10-snap.2627-T1
Valid prediction for GlimmerHMM_glimmerT_26202-T1
Valid prediction for GeneMark_model.44931_t
Valid prediction for snap_scaffold_10-snap.2614-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_10-snap.2643-T1
Valid prediction for GlimmerHMM_glimmerT_26196-T1
Valid prediction for snap_scaffold_10-snap.2617-T1
Valid prediction for GeneMark_model.44951_t
Valid prediction for snap_scaffold_10-snap.2638-T1
Valid prediction for snap_scaffold_10-snap.2635-T1
Valid prediction for GeneMark_model.44955_t
Valid prediction for Augustus_model.g17578.t1
Valid prediction for GeneMark_model.44928_t
Valid prediction for CodingQuarry_transcript_5612-T1
Valid prediction for GlimmerHMM_glimmerT_26207-T1
Valid prediction for GeneMark_model.44918_t
Valid prediction for GeneMark_model.44917_t
Valid prediction for GeneMark_model.44909_t
Valid prediction for GeneMark_model.44922_t
Couldn't classify 61824, 62228
Sorry, prediction pasa_asmbl_3767.p1 fails validation.
(AAG)	 TC	61824-62228	GA	GAG
Valid prediction for snap_scaffold_10-snap.2613-T1
Valid prediction for GlimmerHMM_glimmerT_26199-T1
Valid prediction for Augustus_model.g17580.t1
Valid prediction for GlimmerHMM_glimmerT_26209-T1
Valid prediction for GeneMark_model.44944_t
Valid prediction for GeneMark_model.44925_t
Valid prediction for GeneMark_model.44926_t
Valid prediction for snap_scaffold_10-snap.2625-T1
Valid prediction for GlimmerHMM_glimmerT_26211-T1
Couldn't classify 8296, 8389
Sorry, prediction pasa_asmbl_3778.p1 fails validation.
(GAG)	 AG	8296-8389	GT	AGG
(GAG)	 AG	8786-9027	GA	AAG
-recovered pasa_asmbl_3778.p1, terminal, 8786, 9027
-recovered pasa_asmbl_3778.p1, internal, 8296, 8389
Valid prediction for pasa_asmbl_3771.p1
Valid prediction for GlimmerHMM_glimmerT_26188-T1
Valid prediction for GlimmerHMM_glimmerT_26210-T1
Valid prediction for GeneMark_model.44933_t
Valid prediction for GeneMark_model.44949_t
Valid prediction for GeneMark_model.44947_t
Valid prediction for Augustus_model.g17584.t1
Valid prediction for snap_scaffold_10-snap.2639-T1
Valid prediction for GeneMark_model.44911_t
Valid prediction for GeneMark_model.44915_t
Valid prediction for GlimmerHMM_glimmerT_26204-T1
Valid prediction for snap_scaffold_10-snap.2622-T1
Valid prediction for GeneMark_model.44945_t
Valid prediction for GlimmerHMM_glimmerT_26191-T1
Valid prediction for GeneMark_model.44938_t
Valid prediction for GeneMark_model.44905_t
Valid prediction for Augustus_model.g17582.t1
Valid prediction for GlimmerHMM_glimmerT_26190-T1
Valid prediction for GeneMark_model.44943_t
Valid prediction for GeneMark_model.44910_t
Valid prediction for snap_scaffold_10-snap.2628-T1
Valid prediction for GlimmerHMM_glimmerT_26208-T1
Valid prediction for snap_scaffold_10-snap.2612-T1
Valid prediction for GeneMark_model.44940_t
Valid prediction for snap_scaffold_10-snap.2637-T1
Valid prediction for GeneMark_model.44907_t
Valid prediction for GeneMark_model.44904_t
Valid prediction for GeneMark_model.44936_t
Valid prediction for HiQ_model.g17587.t1
Valid prediction for snap_scaffold_10-snap.2609-T1
Valid prediction for GeneMark_model.44942_t
Valid prediction for GeneMark_model.44950_t
Valid prediction for pasa_asmbl_3777.p1
Valid prediction for GlimmerHMM_glimmerT_26201-T1
Valid prediction for snap_scaffold_10-snap.2630-T1
Valid prediction for Augustus_model.g17574.t1
Valid prediction for snap_scaffold_10-snap.2642-T1
Valid prediction for snap_scaffold_10-snap.2611-T1
Valid prediction for HiQ_model.g17589.t1
Valid prediction for GeneMark_model.44953_t
Valid prediction for Augustus_model.g17576.t1
Valid prediction for snap_scaffold_10-snap.2608-T1
Valid prediction for snap_scaffold_10-snap.2620-T1
Valid prediction for snap_scaffold_10-snap.2633-T1
Valid prediction for Augustus_model.g17588.t1
Valid prediction for GeneMark_model.44913_t
Valid prediction for GlimmerHMM_glimmerT_26194-T1
Couldn't classify 3575, 3650
Couldn't classify 8517, 8694
Sorry, prediction pasa_asmbl_3779.p1 fails validation.
(TTG)	 CT	3575-3650	GT	TGG
(GTA)	 AG	3809-4100	GT	AGG
(GGT)	 AG	4558-4632	GT	CAG
(GAT)	 AG	5259-5348	GT	AGG
(TGA)	 AG	5442-5535	GT	TGG
(GTT)	 AG	5901-6016	GT	AGG
(GCT)	 AG	6246-6301	GT	GGG
(GAA)	 AG	6617-6702	GT	AGG
(TAT)	 AG	6839-6967	GT	AGG
(GAA)	 AG	7381-7460	GT	TGG
(GGA)	 AG	7601-7942	GC	AGG
(GCC)	 AG	8517-8694	AG	AGA
-recovered pasa_asmbl_3779.p1, internal, 3809, 4100
-recovered pasa_asmbl_3779.p1, internal, 4558, 4632
-recovered pasa_asmbl_3779.p1, internal, 5259, 5348
-recovered pasa_asmbl_3779.p1, internal, 5442, 5535
-recovered pasa_asmbl_3779.p1, internal, 5901, 6016
-recovered pasa_asmbl_3779.p1, internal, 6246, 6301
-recovered pasa_asmbl_3779.p1, internal, 6617, 6702
-recovered pasa_asmbl_3779.p1, internal, 6839, 6967
-recovered pasa_asmbl_3779.p1, internal, 7381, 7460
-recovered pasa_asmbl_3779.p1, internal, 7601, 7942
Valid prediction for CodingQuarry_transcript_5614-T1
Valid prediction for GeneMark_model.44920_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18119, rend_intergenic: 15306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44798, rend_intergenic: 18524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53872, rend_intergenic: 46974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59949, rend_intergenic: 58974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62615, rend_intergenic: 60088  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80856, rend_intergenic: 76631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84344, rend_intergenic: 81993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85925, rend_intergenic: 84593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88429, rend_intergenic: 85931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126404, rend_intergenic: 122190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147090, rend_intergenic: 145116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156472, rend_intergenic: 152755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 158327
-exon list size: 612


building trellis

0.2    
0.3    
0.5    
0.7    
0.8    
1.0    
1.1    
1.3    
1.5    
1.6    
1.8    
2.0    
2.1    
2.3    
2.4    
2.6    
2.8    
2.9    
3.1    
3.3    
3.4    
3.6    
3.7    
3.9    
4.1    
4.2    
4.4    
4.6    
4.7    
4.9    
5.0    
5.2    
5.4    
5.5    
5.7    
5.9    
6.0    
6.2    
6.4    
6.5    
6.7    
6.8    
7.0    
7.2    
7.3    
7.5    
7.7    
7.8    
8.0    
8.1    
8.3    
8.5    
8.6    
8.8    
9.0    
9.1    
9.3    
9.4    
9.6    
9.8    
9.9    
10.1    
10.3    
10.4    
10.6    
10.7    
10.9    
11.1    
11.2    
11.4    
11.6    
11.7    
11.9    
12.1    
12.2    
12.4    
12.5    
12.7    
12.9    
13.0    
13.2    
13.4    
13.5    
13.7    
13.8    
14.0    
14.2    
14.3    
14.5    
14.7    
14.8    
15.0    
15.1    
15.3    
15.5    
15.6    
15.8    
16.0    
16.1    
16.3    
16.4    
16.6    
16.8    
16.9    
17.1    
17.3    
17.4    
17.6    
17.8    
17.9    
18.1    
18.2    
18.4    
18.6    
18.7    
18.9    
19.1    
19.2    
19.4    
19.5    
19.7    
19.9    
20.0    
20.2    
20.4    
20.5    
20.7    
20.8    
21.0    
21.2    
21.3    
21.5    
21.7    
21.8    
22.0    
22.1    
22.3    
22.5    
22.6    
22.8    
23.0    
23.1    
23.3    
23.5    
23.6    
23.8    
23.9    
24.1    
24.3    
24.4    
24.6    
24.8    
24.9    
25.1    
25.2    
25.4    
25.6    
25.7    
25.9    
26.1    
26.2    
26.4    
26.5    
26.7    
26.9    
27.0    
27.2    
27.4    
27.5    
27.7    
27.9    
28.0    
28.2    
28.3    
28.5    
28.7    
28.8    
29.0    
29.2    
29.3    
29.5    
29.6    
29.8    
30.0    
30.1    
30.3    
30.5    
30.6    
30.8    
30.9    
31.1    
31.3    
31.4    
31.6    
31.8    
31.9    
32.1    
32.2    
32.4    
32.6    
32.7    
32.9    
33.1    
33.2    
33.4    
33.6    
33.7    
33.9    
34.0    
34.2    
34.4    
34.5    
34.7    
34.9    
35.0    
35.2    
35.3    
35.5    
35.7    
35.8    
36.0    
36.2    
36.3    
36.5    
36.6    
36.8    
37.0    
37.1    
37.3    
37.5    
37.6    
37.8    
37.9    
38.1    
38.3    
38.4    
38.6    
38.8    
38.9    
39.1    
39.3    
39.4    
39.6    
39.7    
39.9    
40.1    
40.2    
40.4    
40.6    
40.7    
40.9    
41.0    
41.2    
41.4    
41.5    
41.7    
41.9    
42.0    
42.2    
42.3    
42.5    
42.7    
42.8    
43.0    
43.2    
43.3    
43.5    
43.6    
43.8    
44.0    
44.1    
44.3    
44.5    
44.6    
44.8    
45.0    
45.1    
45.3    
45.4    
45.6    
45.8    
45.9    
46.1    
46.3    
46.4    
46.6    
46.7    
46.9    
47.1    
47.2    
47.4    
47.6    
47.7    
47.9    
48.0    
48.2    
48.4    
48.5    
48.7    
48.9    
49.0    
49.2    
49.3    
49.5    
49.7    
49.8    
50.0    
50.2    
50.3    
50.5    
50.7    
50.8    
51.0    
51.1    
51.3    
51.5    
51.6    
51.8    
52.0    
52.1    
52.3    
52.4    
52.6    
52.8    
52.9    
53.1    
53.3    
53.4    
53.6    
53.7    
53.9    
54.1    
54.2    
54.4    
54.6    
54.7    
54.9    
55.0    
55.2    
55.4    
55.5    
55.7    
55.9    
56.0    
56.2    
56.4    
56.5    
56.7    
56.8    
57.0    
57.2    
57.3    
57.5    
57.7    
57.8    
58.0    
58.1    
58.3    
58.5    
58.6    
58.8    
59.0    
59.1    
59.3    
59.4    
59.6    
59.8    
59.9    
60.1    
60.3    
60.4    
60.6    
60.7    
60.9    
61.1    
61.2    
61.4    
61.6    
61.7    
61.9    
62.1    
62.2    
62.4    
62.5    
62.7    
62.9    
63.0    
63.2    
63.4    
63.5    
63.7    
63.8    
64.0    
64.2    
64.3    
64.5    
64.7    
64.8    
65.0    
65.1    
65.3    
65.5    
65.6    
65.8    
66.0    
66.1    
66.3    
66.4    
66.6    
66.8    
66.9    
67.1    
67.3    
67.4    
67.6    
67.8    
67.9    
68.1    
68.2    
68.4    
68.6    
68.7    
68.9    
69.1    
69.2    
69.4    
69.5    
69.7    
69.9    
70.0    
70.2    
70.4    
70.5    
70.7    
70.8    
71.0    
71.2    
71.3    
71.5    
71.7    
71.8    
72.0    
72.1    
72.3    
72.5    
72.6    
72.8    
73.0    
73.1    
73.3    
73.5    
73.6    
73.8    
73.9    
74.1    
74.3    
74.4    
74.6    
74.8    
74.9    
75.1    
75.2    
75.4    
75.6    
75.7    
75.9    
76.1    
76.2    
76.4    
76.5    
76.7    
76.9    
77.0    
77.2    
77.4    
77.5    
77.7    
77.9    
78.0    
78.2    
78.3    
78.5    
78.7    
78.8    
79.0    
79.2    
79.3    
79.5    
79.6    
79.8    
80.0    
80.1    
80.3    
80.5    
80.6    
80.8    
80.9    
81.1    
81.3    
81.4    
81.6    
81.8    
81.9    
82.1    
82.2    
82.4    
82.6    
82.7    
82.9    
83.1    
83.2    
83.4    
83.6    
83.7    
83.9    
84.0    
84.2    
84.4    
84.5    
84.7    
84.9    
85.0    
85.2    
85.3    
85.5    
85.7    
85.8    
86.0    
86.2    
86.3    
86.5    
86.6    
86.8    
87.0    
87.1    
87.3    
87.5    
87.6    
87.8    
87.9    
88.1    
88.3    
88.4    
88.6    
88.8    
88.9    
89.1    
89.3    
89.4    
89.6    
89.7    
89.9    
90.1    
90.2    
90.4    
90.6    
90.7    
90.9    
91.0    
91.2    
91.4    
91.5    
91.7    
91.9    
92.0    
92.2    
92.3    
92.5    
92.7    
92.8    
93.0    
93.2    
93.3    
93.5    
93.6    
93.8    
94.0    
94.1    
94.3    
94.5    
94.6    
94.8    
95.0    
95.1    
95.3    
95.4    
95.6    
95.8    
95.9    
96.1    
96.3    
96.4    
96.6    
96.7    
96.9    
97.1    
97.2    
97.4    
97.6    
97.7    
97.9    
98.0    
98.2    
98.4    
98.5    
98.7    
98.9    
99.0    
99.2    
99.3    
99.5    
99.7    
99.8    
-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 18119, rend_intergenic: 15306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44798, rend_intergenic: 18524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53872, rend_intergenic: 46974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59949, rend_intergenic: 58974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62615, rend_intergenic: 60088  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80856, rend_intergenic: 76631  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84344, rend_intergenic: 81993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85925, rend_intergenic: 84593  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88429, rend_intergenic: 85931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126404, rend_intergenic: 122190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147090, rend_intergenic: 145116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156472, rend_intergenic: 152755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support