-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_1102868-1296612

-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_17-snap.241-T1
Valid prediction for snap_scaffold_17-snap.258-T1
Valid prediction for snap_scaffold_17-snap.236-T1
Valid prediction for Augustus_model.g26457.t1
Valid prediction for GlimmerHMM_glimmerT_39716-T1
Valid prediction for Augustus_model.g26446.t1
Valid prediction for snap_scaffold_17-snap.219-T1
Valid prediction for snap_scaffold_17-snap.222-T1
Valid prediction for Augustus_model.g26453.t1
Valid prediction for GlimmerHMM_glimmerT_39724-T1
Valid prediction for GlimmerHMM_glimmerT_39713-T1
Valid prediction for snap_scaffold_17-snap.227-T1
Valid prediction for snap_scaffold_17-snap.212-T1
Valid prediction for snap_scaffold_17-snap.225-T1
Valid prediction for snap_scaffold_17-snap.226-T1
Valid prediction for snap_scaffold_17-snap.242-T1
Couldn't classify 175232, 175380
Couldn't classify 178286, 178302
Sorry, prediction pasa_asmbl_18597.p1 fails validation.
(GAC)	 TG	175232-175380	GT	AAG
(GTG)	 AG	175530-175670	GT	AGG
(GAG)	 AG	177011-177088	GT	AAG
(GGC)	 AG	177971-178029	GT	TGG
(CGG)	 AG	178286-178302	AC	CCA
-recovered pasa_asmbl_18597.p1, internal, 175530, 175670
-recovered pasa_asmbl_18597.p1, internal, 177011, 177088
-recovered pasa_asmbl_18597.p1, internal, 177971, 178029
Valid prediction for GlimmerHMM_glimmerT_39719-T1
Valid prediction for snap_scaffold_17-snap.229-T1
Valid prediction for snap_scaffold_17-snap.221-T1
Valid prediction for snap_scaffold_17-snap.252-T1
Valid prediction for Augustus_model.g26450.t1
Valid prediction for snap_scaffold_17-snap.233-T1
Valid prediction for snap_scaffold_17-snap.230-T1
Valid prediction for Augustus_model.g26445.t1
Valid prediction for snap_scaffold_17-snap.254-T1
Valid prediction for snap_scaffold_17-snap.257-T1
Valid prediction for snap_scaffold_17-snap.209-T1
Valid prediction for snap_scaffold_17-snap.211-T1
Valid prediction for Augustus_model.g26455.t1
Valid prediction for GlimmerHMM_glimmerT_39720-T1
Valid prediction for snap_scaffold_17-snap.234-T1
Valid prediction for Augustus_model.g26456.t1
Valid prediction for GlimmerHMM_glimmerT_39705-T1
Valid prediction for GlimmerHMM_glimmerT_39709-T1
Valid prediction for GlimmerHMM_glimmerT_39701-T1
Valid prediction for snap_scaffold_17-snap.213-T1
Valid prediction for CodingQuarry_transcript_21843-T1
Couldn't classify 171336, 171420
Couldn't classify 172709, 172838
Sorry, prediction pasa_asmbl_18595.p1 fails validation.
(AGC)	 CC	171336-171420	GT	TGG
(GGG)	 AG	171521-171643	GT	AGG
(AGC)	 AG	171858-171946	GT	AGG
(GTG)	 AG	172222-172571	GT	AGG
(GCC)	 AG	172709-172838	CC	AAC
-recovered pasa_asmbl_18595.p1, internal, 171521, 171643
-recovered pasa_asmbl_18595.p1, internal, 171858, 171946
-recovered pasa_asmbl_18595.p1, internal, 172222, 172571
Valid prediction for snap_scaffold_17-snap.235-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_39714-T1
Valid prediction for snap_scaffold_17-snap.244-T1
Valid prediction for snap_scaffold_17-snap.253-T1
Valid prediction for snap_scaffold_17-snap.256-T1
Valid prediction for snap_scaffold_17-snap.216-T1
Valid prediction for GlimmerHMM_glimmerT_39704-T1
Valid prediction for snap_scaffold_17-snap.214-T1
Valid prediction for GlimmerHMM_glimmerT_39723-T1
Valid prediction for pasa_asmbl_18590.p1
Valid prediction for GlimmerHMM_glimmerT_39703-T1
Valid prediction for Augustus_model.g26452.t1
Couldn't classify 33539, 33940
Sorry, prediction pasa_asmbl_17675.p1 fails validation.
(CCC)	 GC	33539-33940	CG	GAC
Valid prediction for snap_scaffold_17-snap.251-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.248-T1
Valid prediction for snap_scaffold_17-snap.217-T1
Valid prediction for GlimmerHMM_glimmerT_39721-T1
Valid prediction for snap_scaffold_17-snap.243-T1
Valid prediction for snap_scaffold_17-snap.260-T1
Valid prediction for snap_scaffold_17-snap.250-T1
Valid prediction for Augustus_model.g26454.t1
Valid prediction for snap_scaffold_17-snap.232-T1
Valid prediction for snap_scaffold_17-snap.255-T1
Valid prediction for GlimmerHMM_glimmerT_39717-T1
Valid prediction for GlimmerHMM_glimmerT_39711-T1
Valid prediction for snap_scaffold_17-snap.210-T1
Valid prediction for CodingQuarry_transcript_21848-T1
Valid prediction for Augustus_model.g26458.t1
Valid prediction for Augustus_model.g26449.t1
Valid prediction for GlimmerHMM_glimmerT_39726-T1
Valid prediction for snap_scaffold_17-snap.246-T1
Valid prediction for snap_scaffold_17-snap.223-T1
Valid prediction for CodingQuarry_transcript_21841-T1
Valid prediction for CodingQuarry_transcript_21847-T1
Valid prediction for snap_scaffold_17-snap.259-T1
Valid prediction for snap_scaffold_17-snap.240-T1
Valid prediction for snap_scaffold_17-snap.231-T1
Valid prediction for GlimmerHMM_glimmerT_39715-T1
Valid prediction for HiQ_model.g26444.t1
Valid prediction for Augustus_model.g26448.t1
Valid prediction for snap_scaffold_17-snap.218-T1
Valid prediction for CodingQuarry_transcript_21840-T1
Valid prediction for snap_scaffold_17-snap.249-T1
Valid prediction for GlimmerHMM_glimmerT_39706-T1
Valid prediction for Augustus_model.g26451.t1
Valid prediction for snap_scaffold_17-snap.237-T1
Couldn't classify 151595, 151705
Sorry, prediction pasa_asmbl_17677.p1 fails validation.
(GTG)	 AG	151595-151705	GT	AGG
(GTG)	 AG	152284-152526	AG	GAA
-recovered pasa_asmbl_17677.p1, terminal, 152284, 152526
-recovered pasa_asmbl_17677.p1, internal, 151595, 151705
Valid prediction for snap_scaffold_17-snap.238-T1
Valid prediction for CodingQuarry_transcript_21846-T1
Valid prediction for GlimmerHMM_glimmerT_39707-T1
Couldn't classify 4124, 4190
Sorry, prediction pasa_asmbl_17683.p1 fails validation.
(GAT)	 CA	4124-4190	GT	GGG
(AAA)	 AG	5246-5290	GT	TGG
(TTC)	 AG	6483-6550	GT	CAG
(GGC)	 AG	6662-6716	GT	AGG
(CTG)	 AG	6792-6834	GT	GGG
(GCT)	 AG	7207-7312	GT	TGG
(GGT)	 AG	7388-7519	AC	AAA
-recovered pasa_asmbl_17683.p1, terminal, 7388, 7519
-recovered pasa_asmbl_17683.p1, internal, 5246, 5290
-recovered pasa_asmbl_17683.p1, internal, 6483, 6550
-recovered pasa_asmbl_17683.p1, internal, 6662, 6716
-recovered pasa_asmbl_17683.p1, internal, 6792, 6834
-recovered pasa_asmbl_17683.p1, internal, 7207, 7312
Valid prediction for Augustus_model.g26447.t1
Valid prediction for snap_scaffold_17-snap.228-T1
Valid prediction for GlimmerHMM_glimmerT_39722-T1
Valid prediction for GlimmerHMM_glimmerT_39708-T1
Valid prediction for snap_scaffold_17-snap.247-T1
Valid prediction for snap_scaffold_17-snap.215-T1
Valid prediction for GlimmerHMM_glimmerT_39725-T1
Valid prediction for GlimmerHMM_glimmerT_39712-T1
Valid prediction for snap_scaffold_17-snap.239-T1
Valid prediction for snap_scaffold_17-snap.220-T1
Valid prediction for GlimmerHMM_glimmerT_39710-T1
Valid prediction for GlimmerHMM_glimmerT_39702-T1
Valid prediction for snap_scaffold_17-snap.224-T1
Valid prediction for GlimmerHMM_glimmerT_39718-T1
Valid prediction for snap_scaffold_17-snap.245-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14044, rend_intergenic: 7828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24858, rend_intergenic: 24267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30552, rend_intergenic: 27827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38077, rend_intergenic: 34157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42974, rend_intergenic: 41220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46722, rend_intergenic: 42981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49946, rend_intergenic: 47736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57849, rend_intergenic: 50884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66674, rend_intergenic: 65118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72762, rend_intergenic: 66744  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91868, rend_intergenic: 88171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134058, rend_intergenic: 120301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156683, rend_intergenic: 136532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165972, rend_intergenic: 159177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179027, rend_intergenic: 174391  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181562, rend_intergenic: 179126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190994, rend_intergenic: 186227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 193745
-exon list size: 377


building trellis

0.3    
0.5    
0.8    
1.1    
1.3    
1.6    
1.8    
2.1    
2.4    
2.6    
2.9    
3.2    
3.4    
3.7    
4.0    
4.2    
4.5    
4.7    
5.0    
5.3    
5.5    
5.8    
6.1    
6.3    
6.6    
6.9    
7.1    
7.4    
7.7    
7.9    
8.2    
8.4    
8.7    
9.0    
9.2    
9.5    
9.8    
10.0    
10.3    
10.6    
10.8    
11.1    
11.3    
11.6    
11.9    
12.1    
12.4    
12.7    
12.9    
13.2    
13.5    
13.7    
14.0    
14.2    
14.5    
14.8    
15.0    
15.3    
15.6    
15.8    
16.1    
16.4    
16.6    
16.9    
17.2    
17.4    
17.7    
17.9    
18.2    
18.5    
18.7    
19.0    
19.3    
19.5    
19.8    
20.1    
20.3    
20.6    
20.8    
21.1    
21.4    
21.6    
21.9    
22.2    
22.4    
22.7    
23.0    
23.2    
23.5    
23.7    
24.0    
24.3    
24.5    
24.8    
25.1    
25.3    
25.6    
25.9    
26.1    
26.4    
26.6    
26.9    
27.2    
27.4    
27.7    
28.0    
28.2    
28.5    
28.8    
29.0    
29.3    
29.6    
29.8    
30.1    
30.3    
30.6    
30.9    
31.1    
31.4    
31.7    
31.9    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.6    
34.8    
35.1    
35.4    
35.6    
35.9    
36.1    
36.4    
36.7    
36.9    
37.2    
37.5    
37.7    
38.0    
38.3    
38.5    
38.8    
39.1    
39.3    
39.6    
39.8    
40.1    
40.4    
40.6    
40.9    
41.2    
41.4    
41.7    
42.0    
42.2    
42.5    
42.7    
43.0    
43.3    
43.5    
43.8    
44.1    
44.3    
44.6    
44.9    
45.1    
45.4    
45.6    
45.9    
46.2    
46.4    
46.7    
47.0    
47.2    
47.5    
47.8    
48.0    
48.3    
48.5    
48.8    
49.1    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
50.9    
51.2    
51.5    
51.7    
52.0    
52.2    
52.5    
52.8    
53.0    
53.3    
53.6    
53.8    
54.1    
54.4    
54.6    
54.9    
55.1    
55.4    
55.7    
55.9    
56.2    
56.5    
56.7    
57.0    
57.3    
57.5    
57.8    
58.0    
58.3    
58.6    
58.8    
59.1    
59.4    
59.6    
59.9    
60.2    
60.4    
60.7    
60.9    
61.2    
61.5    
61.7    
62.0    
62.3    
62.5    
62.8    
63.1    
63.3    
63.6    
63.9    
64.1    
64.4    
64.6    
64.9    
65.2    
65.4    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.1    
68.3    
68.6    
68.9    
69.1    
69.4    
69.7    
69.9    
70.2    
70.4    
70.7    
71.0    
71.2    
71.5    
71.8    
72.0    
72.3    
72.6    
72.8    
73.1    
73.4    
73.6    
73.9    
74.1    
74.4    
74.7    
74.9    
75.2    
75.5    
75.7    
76.0    
76.3    
76.5    
76.8    
77.0    
77.3    
77.6    
77.8    
78.1    
78.4    
78.6    
78.9    
79.2    
79.4    
79.7    
79.9    
80.2    
80.5    
80.7    
81.0    
81.3    
81.5    
81.8    
82.1    
82.3    
82.6    
82.8    
83.1    
83.4    
83.6    
83.9    
84.2    
84.4    
84.7    
85.0    
85.2    
85.5    
85.8    
86.0    
86.3    
86.5    
86.8    
87.1    
87.3    
87.6    
87.9    
88.1    
88.4    
88.7    
88.9    
89.2    
89.4    
89.7    
90.0    
90.2    
90.5    
90.8    
91.0    
91.3    
91.6    
91.8    
92.1    
92.3    
92.6    
92.9    
93.1    
93.4    
93.7    
93.9    
94.2    
94.5    
94.7    
95.0    
95.3    
95.5    
95.8    
96.0    
96.3    
96.6    
96.8    
97.1    
97.4    
97.6    
97.9    
98.2    
98.4    
98.7    
98.9    
99.2    
99.5    
99.7    
-found 40 predictions from path traversal
Error with prediction: snap lend_intergenic: 14044, rend_intergenic: 7828  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24858, rend_intergenic: 24267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30552, rend_intergenic: 27827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38077, rend_intergenic: 34157  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42974, rend_intergenic: 41220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46722, rend_intergenic: 42981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49946, rend_intergenic: 47736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57849, rend_intergenic: 50884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66674, rend_intergenic: 65118  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72762, rend_intergenic: 66744  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91868, rend_intergenic: 88171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 134058, rend_intergenic: 120301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156683, rend_intergenic: 136532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165972, rend_intergenic: 159177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179027, rend_intergenic: 174391  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 181562, rend_intergenic: 179126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 190994, rend_intergenic: 186227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support