-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_14336681-14580853

-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_15-snap.2876-T1
Valid prediction for Augustus_model.g24903.t1
Valid prediction for CodingQuarry_transcript_18227-T1
Valid prediction for GlimmerHMM_glimmerT_37390-T1
Valid prediction for GlimmerHMM_glimmerT_37380-T1
Valid prediction for snap_scaffold_15-snap.2880-T1
Valid prediction for GlimmerHMM_glimmerT_37378-T1
Valid prediction for snap_scaffold_15-snap.2884-T1
Valid prediction for snap_scaffold_15-snap.2890-T1
Couldn't classify 173285, 173549
Sorry, prediction pasa_asmbl_15685.p1 fails validation.
(GTG)	 CT	173285-173549	GT	AGG
(GTC)	 AG	173790-173891	GT	AGG
(ACT)	 AG	174053-174208	GT	AGG
(AGA)	 AG	174322-174338	CA	AGC
-recovered pasa_asmbl_15685.p1, terminal, 174322, 174338
-recovered pasa_asmbl_15685.p1, internal, 173790, 173891
-recovered pasa_asmbl_15685.p1, internal, 174053, 174208
Valid prediction for GlimmerHMM_glimmerT_37386-T1
Valid prediction for GlimmerHMM_glimmerT_37363-T1
Valid prediction for snap_scaffold_15-snap.2881-T1
Valid prediction for snap_scaffold_15-snap.2893-T1
Valid prediction for GlimmerHMM_glimmerT_37383-T1
Valid prediction for Augustus_model.g24910.t1
Valid prediction for snap_scaffold_15-snap.2899-T1
Valid prediction for GlimmerHMM_glimmerT_37370-T1
Valid prediction for GlimmerHMM_glimmerT_37374-T1
Valid prediction for snap_scaffold_15-snap.2887-T1
Valid prediction for GlimmerHMM_glimmerT_37364-T1
Valid prediction for Augustus_model.g24909.t1
Valid prediction for snap_scaffold_15-snap.2883-T1
Valid prediction for Augustus_model.g24912.t1
Valid prediction for snap_scaffold_15-snap.2891-T1
Valid prediction for GlimmerHMM_glimmerT_37375-T1
Valid prediction for GlimmerHMM_glimmerT_37377-T1
Valid prediction for GlimmerHMM_glimmerT_37384-T1
Valid prediction for Augustus_model.g24907.t1
Valid prediction for GlimmerHMM_glimmerT_37385-T1
Valid prediction for Augustus_model.g24911.t1
Valid prediction for snap_scaffold_15-snap.2892-T1
Valid prediction for GlimmerHMM_glimmerT_37367-T1
Valid prediction for snap_scaffold_15-snap.2900-T1
Valid prediction for Augustus_model.g24914.t1
Valid prediction for snap_scaffold_15-snap.2878-T1
Valid prediction for snap_scaffold_15-snap.2888-T1
Valid prediction for GlimmerHMM_glimmerT_37388-T1
Valid prediction for GlimmerHMM_glimmerT_37369-T1
Valid prediction for snap_scaffold_15-snap.2889-T1
Valid prediction for Augustus_model.g24902.t1
Valid prediction for Augustus_model.g24915.t1
Valid prediction for GlimmerHMM_glimmerT_37368-T1
Valid prediction for snap_scaffold_15-snap.2879-T1
Valid prediction for Augustus_model.g24913.t1
Valid prediction for snap_scaffold_15-snap.2870-T1
Valid prediction for GlimmerHMM_glimmerT_37387-T1
Valid prediction for snap_scaffold_15-snap.2885-T1
Valid prediction for snap_scaffold_15-snap.2873-T1
Valid prediction for GlimmerHMM_glimmerT_37379-T1
Valid prediction for HiQ_model.g24906.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 pasa_asmbl_14721.p1
Valid prediction for snap_scaffold_15-snap.2898-T1
Valid prediction for snap_scaffold_15-snap.2875-T1
Valid prediction for GlimmerHMM_glimmerT_37372-T1
Valid prediction for GlimmerHMM_glimmerT_37362-T1
Valid prediction for GlimmerHMM_glimmerT_37365-T1
Valid prediction for GlimmerHMM_glimmerT_37376-T1
Valid prediction for Augustus_model.g24904.t1
Couldn't classify 26577, 27527
Sorry, prediction pasa_asmbl_14722.p1 fails validation.
(GAC)	 TG	26577-27527	CA	CGC
Valid prediction for Augustus_model.g24901.t1
Valid prediction for GlimmerHMM_glimmerT_37371-T1
Valid prediction for snap_scaffold_15-snap.2874-T1
Valid prediction for snap_scaffold_15-snap.2895-T1
Valid prediction for snap_scaffold_15-snap.2872-T1
Couldn't classify 25899, 26318
Sorry, prediction pasa_asmbl_14723.p1 fails validation.
(TCC)	 AC	25899-26318	GA	ACG
Valid prediction for GlimmerHMM_glimmerT_37373-T1
Valid prediction for Augustus_model.g24917.t1
Valid prediction for GlimmerHMM_glimmerT_37392-T1
Valid prediction for Augustus_model.g24908.t1
Valid prediction for GlimmerHMM_glimmerT_37382-T1
Valid prediction for GlimmerHMM_glimmerT_37366-T1
Valid prediction for snap_scaffold_15-snap.2871-T1
Valid prediction for GlimmerHMM_glimmerT_37389-T1
Valid prediction for snap_scaffold_15-snap.2877-T1
Valid prediction for HiQ_model.g24916.t1
Valid prediction for snap_scaffold_15-snap.2882-T1
Valid prediction for GlimmerHMM_glimmerT_37393-T1
Valid prediction for snap_scaffold_15-snap.2869-T1
Valid prediction for snap_scaffold_15-snap.2894-T1
Valid prediction for GlimmerHMM_glimmerT_37391-T1
Valid prediction for GlimmerHMM_glimmerT_37394-T1
Valid prediction for snap_scaffold_15-snap.2901-T1
Valid prediction for snap_scaffold_15-snap.2896-T1
Valid prediction for GlimmerHMM_glimmerT_37381-T1
Valid prediction for Augustus_model.g24905.t1
Valid prediction for snap_scaffold_15-snap.2897-T1
Valid prediction for snap_scaffold_15-snap.2886-T1
Valid prediction for GlimmerHMM_glimmerT_37395-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6200, rend_intergenic: 5351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7967, rend_intergenic: 6907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97021, rend_intergenic: 95897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120314, rend_intergenic: 119515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127343, rend_intergenic: 121893  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146279, rend_intergenic: 142905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 228279, rend_intergenic: 220605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 236990, rend_intergenic: 228685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 244173
-exon list size: 277


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.2    
2.5    
2.9    
3.2    
3.6    
3.9    
4.3    
4.7    
5.0    
5.4    
5.7    
6.1    
6.5    
6.8    
7.2    
7.5    
7.9    
8.2    
8.6    
9.0    
9.3    
9.7    
10.0    
10.4    
10.8    
11.1    
11.5    
11.8    
12.2    
12.5    
12.9    
13.3    
13.6    
14.0    
14.3    
14.7    
15.1    
15.4    
15.8    
16.1    
16.5    
16.8    
17.2    
17.6    
17.9    
18.3    
18.6    
19.0    
19.4    
19.7    
20.1    
20.4    
20.8    
21.1    
21.5    
21.9    
22.2    
22.6    
22.9    
23.3    
23.7    
24.0    
24.4    
24.7    
25.1    
25.4    
25.8    
26.2    
26.5    
26.9    
27.2    
27.6    
28.0    
28.3    
28.7    
29.0    
29.4    
29.7    
30.1    
30.5    
30.8    
31.2    
31.5    
31.9    
32.3    
32.6    
33.0    
33.3    
33.7    
34.1    
34.4    
34.8    
35.1    
35.5    
35.8    
36.2    
36.6    
36.9    
37.3    
37.6    
38.0    
38.4    
38.7    
39.1    
39.4    
39.8    
40.1    
40.5    
40.9    
41.2    
41.6    
41.9    
42.3    
42.7    
43.0    
43.4    
43.7    
44.1    
44.4    
44.8    
45.2    
45.5    
45.9    
46.2    
46.6    
47.0    
47.3    
47.7    
48.0    
48.4    
48.7    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.3    
51.6    
52.0    
52.3    
52.7    
53.0    
53.4    
53.8    
54.1    
54.5    
54.8    
55.2    
55.6    
55.9    
56.3    
56.6    
57.0    
57.3    
57.7    
58.1    
58.4    
58.8    
59.1    
59.5    
59.9    
60.2    
60.6    
60.9    
61.3    
61.6    
62.0    
62.4    
62.7    
63.1    
63.4    
63.8    
64.2    
64.5    
64.9    
65.2    
65.6    
65.9    
66.3    
66.7    
67.0    
67.4    
67.7    
68.1    
68.5    
68.8    
69.2    
69.5    
69.9    
70.3    
70.6    
71.0    
71.3    
71.7    
72.0    
72.4    
72.8    
73.1    
73.5    
73.8    
74.2    
74.6    
74.9    
75.3    
75.6    
76.0    
76.3    
76.7    
77.1    
77.4    
77.8    
78.1    
78.5    
78.9    
79.2    
79.6    
79.9    
80.3    
80.6    
81.0    
81.4    
81.7    
82.1    
82.4    
82.8    
83.2    
83.5    
83.9    
84.2    
84.6    
84.9    
85.3    
85.7    
86.0    
86.4    
86.7    
87.1    
87.5    
87.8    
88.2    
88.5    
88.9    
89.2    
89.6    
90.0    
90.3    
90.7    
91.0    
91.4    
91.8    
92.1    
92.5    
92.8    
93.2    
93.5    
93.9    
94.3    
94.6    
95.0    
95.3    
95.7    
96.1    
96.4    
96.8    
97.1    
97.5    
97.8    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 6200, rend_intergenic: 5351  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7967, rend_intergenic: 6907  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97021, rend_intergenic: 95897  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120314, rend_intergenic: 119515  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127343, rend_intergenic: 121893  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146279, rend_intergenic: 142905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 228279, rend_intergenic: 220605  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 236990, rend_intergenic: 228685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support