-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_13549514-13741806

-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_41387-T1
Valid prediction for Augustus_model.g27572.t1
Valid prediction for GlimmerHMM_glimmerT_41380-T1
Valid prediction for snap_scaffold_17-snap.2822-T1
Valid prediction for snap_scaffold_17-snap.2817-T1
Valid prediction for GlimmerHMM_glimmerT_41379-T1
Valid prediction for snap_scaffold_17-snap.2801-T1
Valid prediction for GlimmerHMM_glimmerT_41378-T1
Valid prediction for Augustus_model.g27570.t1
Valid prediction for Augustus_model.g27569.t1
Valid prediction for snap_scaffold_17-snap.2796-T1
Couldn't classify 57255, 57285
Couldn't classify 58705, 58767
Sorry, prediction pasa_asmbl_19488.p1 fails validation.
(GTC)	 TG	57255-57285	GT	TGG
(ACC)	 AG	57974-58221	GT	AGG
(GTG)	 AG	58705-58767	AC	ACA
-recovered pasa_asmbl_19488.p1, internal, 57974, 58221
Valid prediction for GlimmerHMM_glimmerT_41373-T1
Couldn't classify 125382, 125510
Sorry, prediction pasa_asmbl_19346.p2 fails validation.
(CTC)	 CT	125382-125510	GT	AGG
(GTG)	 AG	127832-127957	GT	AGG
(CTG)	 AG	128577-128687	GA	AGG
-recovered pasa_asmbl_19346.p2, terminal, 128577, 128687
-recovered pasa_asmbl_19346.p2, internal, 127832, 127957
Valid prediction for snap_scaffold_17-snap.2808-T1
Couldn't classify 54443, 54803
Couldn't classify 55245, 55507
Sorry, prediction pasa_asmbl_19337.p1 fails validation.
(CAT)	 TC	54443-54803	GT	AGG
(GAT)	 AG	55245-55507	GA	GGG
Valid prediction for Augustus_model.g27576.t1
Valid prediction for GlimmerHMM_glimmerT_41370-T1
Valid prediction for snap_scaffold_17-snap.2786-T1
Valid prediction for GlimmerHMM_glimmerT_41371-T1
Valid prediction for GlimmerHMM_glimmerT_41382-T1
Valid prediction for snap_scaffold_17-snap.2784-T1
Valid prediction for CodingQuarry_transcript_22239-T1
Valid prediction for snap_scaffold_17-snap.2823-T1
Valid prediction for GlimmerHMM_glimmerT_41377-T1
Valid prediction for GlimmerHMM_glimmerT_41384-T1
Valid prediction for Augustus_model.g27578.t1
Valid prediction for snap_scaffold_17-snap.2810-T1
Valid prediction for snap_scaffold_17-snap.2816-T1
Valid prediction for snap_scaffold_17-snap.2811-T1
Valid prediction for snap_scaffold_17-snap.2804-T1
Valid prediction for snap_scaffold_17-snap.2800-T1
Valid prediction for Augustus_model.g27573.t1
Couldn't classify 39280, 39461
Couldn't classify 42106, 42198
Sorry, prediction pasa_asmbl_19335.p1 fails validation.
(CAG)	 CT	39280-39461	GT	AAG
(AGA)	 AG	40694-40790	GT	GGG
(ATC)	 AG	42106-42198	AG	GGA
-recovered pasa_asmbl_19335.p1, internal, 40694, 40790
Valid prediction for snap_scaffold_17-snap.2787-T1
Valid prediction for snap_scaffold_17-snap.2802-T1
Valid prediction for GlimmerHMM_glimmerT_41375-T1
Valid prediction for snap_scaffold_17-snap.2814-T1
Valid prediction for snap_scaffold_17-snap.2798-T1
Valid prediction for snap_scaffold_17-snap.2806-T1
Valid prediction for Augustus_model.g27575.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 snap_scaffold_17-snap.2815-T1
Valid prediction for snap_scaffold_17-snap.2820-T1
Valid prediction for snap_scaffold_17-snap.2789-T1
Valid prediction for pasa_asmbl_18375.p1
Valid prediction for Augustus_model.g27582.t1
Valid prediction for GlimmerHMM_glimmerT_41388-T1
Valid prediction for snap_scaffold_17-snap.2825-T1
Valid prediction for Augustus_model.g27580.t1
Valid prediction for snap_scaffold_17-snap.2812-T1
Valid prediction for Augustus_model.g27579.t1
Valid prediction for GlimmerHMM_glimmerT_41386-T1
Valid prediction for snap_scaffold_17-snap.2819-T1
Valid prediction for Augustus_model.g27583.t1
Valid prediction for Augustus_model.g27577.t1
Valid prediction for snap_scaffold_17-snap.2805-T1
Valid prediction for snap_scaffold_17-snap.2818-T1
Valid prediction for snap_scaffold_17-snap.2797-T1
Valid prediction for snap_scaffold_17-snap.2791-T1
Valid prediction for snap_scaffold_17-snap.2790-T1
Valid prediction for snap_scaffold_17-snap.2792-T1
Valid prediction for Augustus_model.g27581.t1
Valid prediction for Augustus_model.g27571.t1
Valid prediction for GlimmerHMM_glimmerT_41381-T1
Valid prediction for Augustus_model.g27574.t1
Valid prediction for snap_scaffold_17-snap.2788-T1
Valid prediction for snap_scaffold_17-snap.2793-T1
Valid prediction for GlimmerHMM_glimmerT_41383-T1
Valid prediction for snap_scaffold_17-snap.2794-T1
Valid prediction for snap_scaffold_17-snap.2821-T1
Valid prediction for snap_scaffold_17-snap.2795-T1
Valid prediction for GlimmerHMM_glimmerT_41376-T1
Valid prediction for snap_scaffold_17-snap.2824-T1
Valid prediction for snap_scaffold_17-snap.2803-T1
Valid prediction for snap_scaffold_17-snap.2807-T1
Valid prediction for snap_scaffold_17-snap.2783-T1
Valid prediction for GlimmerHMM_glimmerT_41374-T1
Valid prediction for snap_scaffold_17-snap.2813-T1
Valid prediction for snap_scaffold_17-snap.2799-T1
Valid prediction for snap_scaffold_17-snap.2785-T1
Valid prediction for GlimmerHMM_glimmerT_41372-T1
Valid prediction for snap_scaffold_17-snap.2809-T1
Valid prediction for GlimmerHMM_glimmerT_41385-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2974, rend_intergenic: 1606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5691, rend_intergenic: 3160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49037, rend_intergenic: 18605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53768, rend_intergenic: 51139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60803, rend_intergenic: 57090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73082, rend_intergenic: 69690  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79898, rend_intergenic: 73991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94028, rend_intergenic: 86231  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99672, rend_intergenic: 96619  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99867, rend_intergenic: 99688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108301, rend_intergenic: 100090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110335, rend_intergenic: 108935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116637, rend_intergenic: 110557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123190, rend_intergenic: 118041  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129472, rend_intergenic: 123209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134708, rend_intergenic: 132532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154979, rend_intergenic: 136140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163278, rend_intergenic: 155148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172673, rend_intergenic: 167401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189964, rend_intergenic: 176540  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 192293
-exon list size: 324


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.3    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.5    
32.8    
33.1    
33.4    
33.7    
34.0    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
66.0    
66.3    
66.6    
66.9    
67.2    
67.5    
67.8    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 2974, rend_intergenic: 1606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 5691, rend_intergenic: 3160  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49037, rend_intergenic: 18605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53768, rend_intergenic: 51139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60803, rend_intergenic: 57090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73082, rend_intergenic: 69690  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79898, rend_intergenic: 73991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94028, rend_intergenic: 86231  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99672, rend_intergenic: 96619  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99867, rend_intergenic: 99688  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108301, rend_intergenic: 100090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110335, rend_intergenic: 108935  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116637, rend_intergenic: 110557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123190, rend_intergenic: 118041  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129472, rend_intergenic: 123209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134708, rend_intergenic: 132532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154979, rend_intergenic: 136140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163278, rend_intergenic: 155148  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172673, rend_intergenic: 167401  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 189964, rend_intergenic: 176540  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