-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_2216153-2459309

-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_35736-T1
Valid prediction for GlimmerHMM_glimmerT_35714-T1
Valid prediction for GlimmerHMM_glimmerT_35709-T1
Valid prediction for snap_scaffold_15-snap.479-T1
Valid prediction for GlimmerHMM_glimmerT_35711-T1
Valid prediction for GlimmerHMM_glimmerT_35722-T1
Valid prediction for Augustus_model.g23828.t1
Valid prediction for snap_scaffold_15-snap.492-T1
Valid prediction for Augustus_model.g23829.t1
Valid prediction for snap_scaffold_15-snap.464-T1
Valid prediction for snap_scaffold_15-snap.467-T1
Valid prediction for GlimmerHMM_glimmerT_35708-T1
Valid prediction for snap_scaffold_15-snap.490-T1
Valid prediction for snap_scaffold_15-snap.483-T1
Valid prediction for GlimmerHMM_glimmerT_35729-T1
Valid prediction for GlimmerHMM_glimmerT_35719-T1
Valid prediction for snap_scaffold_15-snap.474-T1
Valid prediction for GlimmerHMM_glimmerT_35706-T1
Valid prediction for GlimmerHMM_glimmerT_35707-T1
Valid prediction for snap_scaffold_15-snap.491-T1
Valid prediction for GlimmerHMM_glimmerT_35733-T1
Valid prediction for snap_scaffold_15-snap.485-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_15-snap.463-T1
Valid prediction for snap_scaffold_15-snap.497-T1
Valid prediction for snap_scaffold_15-snap.469-T1
Valid prediction for snap_scaffold_15-snap.495-T1
Valid prediction for snap_scaffold_15-snap.498-T1
Valid prediction for snap_scaffold_15-snap.499-T1
Valid prediction for snap_scaffold_15-snap.466-T1
Valid prediction for snap_scaffold_15-snap.473-T1
Valid prediction for GlimmerHMM_glimmerT_35715-T1
Valid prediction for GlimmerHMM_glimmerT_35731-T1
Valid prediction for snap_scaffold_15-snap.489-T1
Valid prediction for snap_scaffold_15-snap.461-T1
Valid prediction for Augustus_model.g23833.t1
Valid prediction for GlimmerHMM_glimmerT_35705-T1
Valid prediction for snap_scaffold_15-snap.480-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.g23830.t1
Valid prediction for snap_scaffold_15-snap.476-T1
Valid prediction for Augustus_model.g23831.t1
Valid prediction for snap_scaffold_15-snap.487-T1
Valid prediction for Augustus_model.g23836.t1
Valid prediction for GlimmerHMM_glimmerT_35720-T1
Valid prediction for GlimmerHMM_glimmerT_35732-T1
Valid prediction for GlimmerHMM_glimmerT_35716-T1
Valid prediction for GlimmerHMM_glimmerT_35726-T1
Valid prediction for GlimmerHMM_glimmerT_35712-T1
Valid prediction for snap_scaffold_15-snap.494-T1
Valid prediction for snap_scaffold_15-snap.471-T1
Valid prediction for snap_scaffold_15-snap.468-T1
Valid prediction for snap_scaffold_15-snap.460-T1
Valid prediction for snap_scaffold_15-snap.459-T1
Valid prediction for CodingQuarry_transcript_17929-T1
Valid prediction for GlimmerHMM_glimmerT_35724-T1
Valid prediction for GlimmerHMM_glimmerT_35718-T1
Valid prediction for GlimmerHMM_glimmerT_35734-T1
Valid prediction for snap_scaffold_15-snap.496-T1
Valid prediction for GlimmerHMM_glimmerT_35727-T1
Valid prediction for snap_scaffold_15-snap.484-T1
Valid prediction for snap_scaffold_15-snap.478-T1
Valid prediction for snap_scaffold_15-snap.465-T1
Valid prediction for snap_scaffold_15-snap.462-T1
Valid prediction for Augustus_model.g23834.t1
Valid prediction for GlimmerHMM_glimmerT_35730-T1
Couldn't classify 4522, 4689
Couldn't classify 6133, 6312
Sorry, prediction pasa_asmbl_14881.p2 fails validation.
(AGT)	 TC	4522-4689	GT	AGG
(GTG)	 AG	6133-6312	AA	GTA
Valid prediction for snap_scaffold_15-snap.458-T1
Valid prediction for GlimmerHMM_glimmerT_35735-T1
Valid prediction for snap_scaffold_15-snap.477-T1
Valid prediction for snap_scaffold_15-snap.488-T1
Valid prediction for GlimmerHMM_glimmerT_35721-T1
Valid prediction for Augustus_model.g23837.t1
Valid prediction for snap_scaffold_15-snap.472-T1
Valid prediction for GlimmerHMM_glimmerT_35710-T1
Valid prediction for GlimmerHMM_glimmerT_35717-T1
Valid prediction for snap_scaffold_15-snap.481-T1
Valid prediction for snap_scaffold_15-snap.475-T1
Valid prediction for snap_scaffold_15-snap.470-T1
Valid prediction for GlimmerHMM_glimmerT_35704-T1
Valid prediction for snap_scaffold_15-snap.457-T1
Couldn't classify 33579, 33718
Sorry, prediction pasa_asmbl_13998.p1 fails validation.
(AGT)	 AG	33579-33718	GT	AGG
(AAG)	 AG	33945-33993	GT	CGG
(GAG)	 AG	34392-34443	GT	AGG
(ACA)	 AG	34646-34712	GT	AGG
(ACC)	 AG	36597-36681	GT	AGG
(GAC)	 AG	37047-37104	GT	TGG
(CAA)	 AG	38015-38052	AG	AGA
-recovered pasa_asmbl_13998.p1, terminal, 38015, 38052
-recovered pasa_asmbl_13998.p1, internal, 33579, 33718
-recovered pasa_asmbl_13998.p1, internal, 33945, 33993
-recovered pasa_asmbl_13998.p1, internal, 34392, 34443
-recovered pasa_asmbl_13998.p1, internal, 34646, 34712
-recovered pasa_asmbl_13998.p1, internal, 36597, 36681
-recovered pasa_asmbl_13998.p1, internal, 37047, 37104
Valid prediction for GlimmerHMM_glimmerT_35713-T1
Couldn't classify 24614, 24940
Sorry, prediction pasa_asmbl_14002.p1 fails validation.
(CAG)	 GG	24614-24940	TC	GAT
Valid prediction for Augustus_model.g23832.t1
Valid prediction for GlimmerHMM_glimmerT_35723-T1
Valid prediction for GlimmerHMM_glimmerT_35737-T1
Valid prediction for GlimmerHMM_glimmerT_35725-T1
Valid prediction for GlimmerHMM_glimmerT_35728-T1
Valid prediction for Augustus_model.g23838.t1
Valid prediction for Augustus_model.g23835.t1
Valid prediction for snap_scaffold_15-snap.482-T1
Valid prediction for snap_scaffold_15-snap.493-T1
Valid prediction for snap_scaffold_15-snap.486-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 32895, rend_intergenic: 26242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36215, rend_intergenic: 33161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48274, rend_intergenic: 46603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55038, rend_intergenic: 49317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57305, rend_intergenic: 57114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59638, rend_intergenic: 59326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71005, rend_intergenic: 67759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87840, rend_intergenic: 75312  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99611, rend_intergenic: 88047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110787, rend_intergenic: 104581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131493, rend_intergenic: 112871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133842, rend_intergenic: 133769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137767, rend_intergenic: 134345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157151, rend_intergenic: 140683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190771, rend_intergenic: 168073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197486, rend_intergenic: 193161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209285, rend_intergenic: 205106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 242260, rend_intergenic: 214200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 243157
-exon list size: 347


building trellis

0.3    
0.6    
0.9    
1.1    
1.4    
1.7    
2.0    
2.3    
2.6    
2.9    
3.2    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.4    
7.7    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.7    
10.0    
10.3    
10.6    
10.9    
11.2    
11.5    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.8    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.6    
24.9    
25.2    
25.5    
25.8    
26.1    
26.4    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.8    
44.1    
44.4    
44.7    
45.0    
45.3    
45.6    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.1    
48.4    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.6    
51.9    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.4    
54.7    
55.0    
55.3    
55.6    
55.9    
56.2    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.6    
73.9    
74.2    
74.5    
74.8    
75.1    
75.4    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.8    
97.1    
97.4    
97.7    
98.0    
98.3    
98.6    
98.9    
99.1    
99.4    
99.7    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 32895, rend_intergenic: 26242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36215, rend_intergenic: 33161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48274, rend_intergenic: 46603  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55038, rend_intergenic: 49317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57305, rend_intergenic: 57114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59638, rend_intergenic: 59326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71005, rend_intergenic: 67759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87840, rend_intergenic: 75312  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99611, rend_intergenic: 88047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110787, rend_intergenic: 104581  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131493, rend_intergenic: 112871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133842, rend_intergenic: 133769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137767, rend_intergenic: 134345  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157151, rend_intergenic: 140683  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190771, rend_intergenic: 168073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 197486, rend_intergenic: 193161  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 209285, rend_intergenic: 205106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 242260, rend_intergenic: 214200  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