-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_14077704-14342489

-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_20821-T1
Valid prediction for GlimmerHMM_glimmerT_20803-T1
Valid prediction for HiQ_model.g13873.t1
Valid prediction for snap_scaffold_8-snap.2561-T1
Valid prediction for snap_scaffold_8-snap.2595-T1
Valid prediction for snap_scaffold_8-snap.2588-T1
Valid prediction for GlimmerHMM_glimmerT_20814-T1
Valid prediction for GlimmerHMM_glimmerT_20817-T1
Valid prediction for snap_scaffold_8-snap.2560-T1
Valid prediction for snap_scaffold_8-snap.2564-T1
Valid prediction for CodingQuarry_transcript_59886-T1
Valid prediction for GlimmerHMM_glimmerT_20801-T1
Valid prediction for snap_scaffold_8-snap.2589-T1
Valid prediction for GlimmerHMM_glimmerT_20799-T1
Valid prediction for snap_scaffold_8-snap.2576-T1
Valid prediction for CodingQuarry_transcript_59890-T1
Valid prediction for snap_scaffold_8-snap.2591-T1
Valid prediction for GlimmerHMM_glimmerT_20800-T1
Valid prediction for Augustus_model.g13875.t1
Valid prediction for snap_scaffold_8-snap.2592-T1
Valid prediction for snap_scaffold_8-snap.2563-T1
Valid prediction for GlimmerHMM_glimmerT_20805-T1
Valid prediction for GlimmerHMM_glimmerT_20813-T1
Valid prediction for snap_scaffold_8-snap.2602-T1
Valid prediction for GlimmerHMM_glimmerT_20806-T1
Valid prediction for snap_scaffold_8-snap.2605-T1
Valid prediction for snap_scaffold_8-snap.2568-T1
Valid prediction for snap_scaffold_8-snap.2575-T1
Valid prediction for pasa_asmbl_53361.p1
Valid prediction for pasa_asmbl_53365.p1
Valid prediction for snap_scaffold_8-snap.2598-T1
Valid prediction for snap_scaffold_8-snap.2581-T1
Valid prediction for GlimmerHMM_glimmerT_20819-T1
Couldn't classify 54745, 54929
Sorry, prediction pasa_asmbl_53359.p1 fails validation.
(ATG)	 GG	52257-52329	GT	AGG
(GAA)	 AG	52401-52483	GT	TTG
(GAT)	 AG	52798-52978	GT	AGG
(GGT)	 AG	53075-53225	GT	AGG
(CTC)	 AG	53334-53461	GT	AGG
(ATG)	 AG	54745-54929	CT	GAC
-recovered pasa_asmbl_53359.p1, initial, 52257, 52329
-recovered pasa_asmbl_53359.p1, internal, 52401, 52483
-recovered pasa_asmbl_53359.p1, internal, 52798, 52978
-recovered pasa_asmbl_53359.p1, internal, 53075, 53225
-recovered pasa_asmbl_53359.p1, internal, 53334, 53461
Valid prediction for snap_scaffold_8-snap.2604-T1
Valid prediction for GlimmerHMM_glimmerT_20815-T1
Valid prediction for HiQ_model.g13865.t1
Valid prediction for snap_scaffold_8-snap.2583-T1
Valid prediction for snap_scaffold_8-snap.2569-T1
Valid prediction for snap_scaffold_8-snap.2596-T1
Valid prediction for snap_scaffold_8-snap.2566-T1
Valid prediction for HiQ_model.g13867.t1
Valid prediction for snap_scaffold_8-snap.2594-T1
Valid prediction for Augustus_model.g13868.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 GlimmerHMM_glimmerT_20818-T1
Valid prediction for snap_scaffold_8-snap.2577-T1
Valid prediction for snap_scaffold_8-snap.2582-T1
Valid prediction for snap_scaffold_8-snap.2600-T1
Valid prediction for snap_scaffold_8-snap.2585-T1
Valid prediction for snap_scaffold_8-snap.2579-T1
Valid prediction for CodingQuarry_transcript_59889-T1
Valid prediction for snap_scaffold_8-snap.2601-T1
Valid prediction for CodingQuarry_transcript_59887-T1
Valid prediction for HiQ_model.g13870.t1
Valid prediction for Augustus_model.g13864.t1
Valid prediction for snap_scaffold_8-snap.2562-T1
Valid prediction for snap_scaffold_8-snap.2570-T1
Valid prediction for GlimmerHMM_glimmerT_20820-T1
Valid prediction for snap_scaffold_8-snap.2571-T1
Valid prediction for GlimmerHMM_glimmerT_20802-T1
Valid prediction for snap_scaffold_8-snap.2590-T1
Valid prediction for Augustus_model.g13863.t1
Valid prediction for GlimmerHMM_glimmerT_20804-T1
Valid prediction for snap_scaffold_8-snap.2584-T1
Valid prediction for GlimmerHMM_glimmerT_20808-T1
Valid prediction for GlimmerHMM_glimmerT_20811-T1
Valid prediction for snap_scaffold_8-snap.2572-T1
Valid prediction for pasa_asmbl_52298.p1
Valid prediction for snap_scaffold_8-snap.2586-T1
Valid prediction for snap_scaffold_8-snap.2565-T1
Valid prediction for GlimmerHMM_glimmerT_20810-T1
Couldn't classify 208644, 208869
Sorry, prediction pasa_asmbl_52297.p1 fails validation.
(ATG)	 GG	207993-208134	GT	AGG
(AGA)	 AG	208336-208480	GT	AGG
(GCC)	 AG	208644-208869	TG	ACT
-recovered pasa_asmbl_52297.p1, initial, 207993, 208134
add_exon() Sorry, pasa_asmbl_52297.p1 208336-208480-terminal-3 is invalid.
-recovered pasa_asmbl_52297.p1, terminal, 208336, 208480
-recovered pasa_asmbl_52297.p1, internal, 208336, 208480
Valid prediction for snap_scaffold_8-snap.2567-T1
Valid prediction for Augustus_model.g13874.t1
Valid prediction for Augustus_model.g13869.t1
Valid prediction for snap_scaffold_8-snap.2593-T1
Valid prediction for snap_scaffold_8-snap.2578-T1
Valid prediction for snap_scaffold_8-snap.2573-T1
Valid prediction for snap_scaffold_8-snap.2597-T1
Valid prediction for HiQ_model.g13866.t1
Valid prediction for GlimmerHMM_glimmerT_20816-T1
Valid prediction for snap_scaffold_8-snap.2603-T1
Valid prediction for GlimmerHMM_glimmerT_20809-T1
Valid prediction for GlimmerHMM_glimmerT_20797-T1
Valid prediction for snap_scaffold_8-snap.2574-T1
Valid prediction for snap_scaffold_8-snap.2580-T1
Valid prediction for Augustus_model.g13872.t1
Valid prediction for snap_scaffold_8-snap.2599-T1
Valid prediction for Augustus_model.g13871.t1
Valid prediction for GlimmerHMM_glimmerT_20812-T1
Valid prediction for snap_scaffold_8-snap.2587-T1
Valid prediction for GlimmerHMM_glimmerT_20798-T1
Valid prediction for CodingQuarry_transcript_59888-T1
Valid prediction for GlimmerHMM_glimmerT_20807-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 26163, rend_intergenic: 21340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86538, rend_intergenic: 84865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109577, rend_intergenic: 104036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151840, rend_intergenic: 150381  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 235217, rend_intergenic: 231868  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 241750, rend_intergenic: 239596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 262314, rend_intergenic: 259970  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 264786
-exon list size: 241


building trellis

0.4    
0.8    
1.2    
1.6    
2.1    
2.5    
2.9    
3.3    
3.7    
4.1    
4.5    
4.9    
5.3    
5.8    
6.2    
6.6    
7.0    
7.4    
7.8    
8.2    
8.6    
9.1    
9.5    
9.9    
10.3    
10.7    
11.1    
11.5    
11.9    
12.3    
12.8    
13.2    
13.6    
14.0    
14.4    
14.8    
15.2    
15.6    
16.0    
16.5    
16.9    
17.3    
17.7    
18.1    
18.5    
18.9    
19.3    
19.8    
20.2    
20.6    
21.0    
21.4    
21.8    
22.2    
22.6    
23.0    
23.5    
23.9    
24.3    
24.7    
25.1    
25.5    
25.9    
26.3    
26.7    
27.2    
27.6    
28.0    
28.4    
28.8    
29.2    
29.6    
30.0    
30.5    
30.9    
31.3    
31.7    
32.1    
32.5    
32.9    
33.3    
33.7    
34.2    
34.6    
35.0    
35.4    
35.8    
36.2    
36.6    
37.0    
37.4    
37.9    
38.3    
38.7    
39.1    
39.5    
39.9    
40.3    
40.7    
41.2    
41.6    
42.0    
42.4    
42.8    
43.2    
43.6    
44.0    
44.4    
44.9    
45.3    
45.7    
46.1    
46.5    
46.9    
47.3    
47.7    
48.1    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.9    
52.3    
52.7    
53.1    
53.5    
53.9    
54.3    
54.7    
55.1    
55.6    
56.0    
56.4    
56.8    
57.2    
57.6    
58.0    
58.4    
58.8    
59.3    
59.7    
60.1    
60.5    
60.9    
61.3    
61.7    
62.1    
62.6    
63.0    
63.4    
63.8    
64.2    
64.6    
65.0    
65.4    
65.8    
66.3    
66.7    
67.1    
67.5    
67.9    
68.3    
68.7    
69.1    
69.5    
70.0    
70.4    
70.8    
71.2    
71.6    
72.0    
72.4    
72.8    
73.3    
73.7    
74.1    
74.5    
74.9    
75.3    
75.7    
76.1    
76.5    
77.0    
77.4    
77.8    
78.2    
78.6    
79.0    
79.4    
79.8    
80.2    
80.7    
81.1    
81.5    
81.9    
82.3    
82.7    
83.1    
83.5    
84.0    
84.4    
84.8    
85.2    
85.6    
86.0    
86.4    
86.8    
87.2    
87.7    
88.1    
88.5    
88.9    
89.3    
89.7    
90.1    
90.5    
90.9    
91.4    
91.8    
92.2    
92.6    
93.0    
93.4    
93.8    
94.2    
94.7    
95.1    
95.5    
95.9    
96.3    
96.7    
97.1    
97.5    
97.9    
98.4    
98.8    
99.2    
99.6    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 26163, rend_intergenic: 21340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86538, rend_intergenic: 84865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109577, rend_intergenic: 104036  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151840, rend_intergenic: 150381  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 235217, rend_intergenic: 231868  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 241750, rend_intergenic: 239596  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 262314, rend_intergenic: 259970  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