-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_12189862-12358703

-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 CodingQuarry_transcript_15880-T1
Valid prediction for Augustus_model.g23280.t1
Valid prediction for GlimmerHMM_glimmerT_34819-T1
Valid prediction for snap_scaffold_14-snap.2528-T1
Valid prediction for pasa_asmbl_12421.p1
Valid prediction for GlimmerHMM_glimmerT_34827-T1
Valid prediction for snap_scaffold_14-snap.2502-T1
Valid prediction for snap_scaffold_14-snap.2508-T1
Valid prediction for GlimmerHMM_glimmerT_34825-T1
Valid prediction for CodingQuarry_transcript_15879-T1
Valid prediction for snap_scaffold_14-snap.2500-T1
Valid prediction for snap_scaffold_14-snap.2526-T1
Valid prediction for CodingQuarry_transcript_15877-T1
Valid prediction for HiQ_model.g23287.t1
Valid prediction for GlimmerHMM_glimmerT_34816-T1
Valid prediction for Augustus_model.g23283.t1
Valid prediction for GlimmerHMM_glimmerT_34803-T1
Valid prediction for snap_scaffold_14-snap.2512-T1
Valid prediction for Augustus_model.g23289.t1
Valid prediction for pasa_asmbl_12423.p1
Valid prediction for GlimmerHMM_glimmerT_34804-T1
Valid prediction for snap_scaffold_14-snap.2495-T1
Valid prediction for Augustus_model.g23273.t1
Valid prediction for snap_scaffold_14-snap.2511-T1
Valid prediction for GlimmerHMM_glimmerT_34828-T1
Valid prediction for snap_scaffold_14-snap.2524-T1
Valid prediction for GlimmerHMM_glimmerT_34814-T1
Valid prediction for snap_scaffold_14-snap.2518-T1
Valid prediction for GlimmerHMM_glimmerT_34831-T1
Valid prediction for HiQ_model.g23292.t1
Valid prediction for snap_scaffold_14-snap.2517-T1
Valid prediction for snap_scaffold_14-snap.2494-T1
Valid prediction for GlimmerHMM_glimmerT_34821-T1
Valid prediction for snap_scaffold_14-snap.2515-T1
Valid prediction for snap_scaffold_14-snap.2499-T1
Valid prediction for snap_scaffold_14-snap.2506-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_14-snap.2510-T1
Valid prediction for snap_scaffold_14-snap.2492-T1
Valid prediction for GlimmerHMM_glimmerT_34829-T1
Valid prediction for GlimmerHMM_glimmerT_34805-T1
Valid prediction for Augustus_model.g23274.t1
Valid prediction for GlimmerHMM_glimmerT_34807-T1
Valid prediction for GlimmerHMM_glimmerT_34811-T1
Valid prediction for snap_scaffold_14-snap.2497-T1
Couldn't classify 13383, 13470
Sorry, prediction pasa_asmbl_13567.p1 fails validation.
(ATG)	 AC	12077-12115	GT	AGG
(TTT)	 AG	12560-12688	GT	AGG
(CCA)	 AG	12852-13011	GT	AGG
(GCC)	 AG	13239-13296	GT	TGG
(GGA)	 AG	13383-13470	GA	ACG
-recovered pasa_asmbl_13567.p1, initial, 12077, 12115
-recovered pasa_asmbl_13567.p1, internal, 12560, 12688
-recovered pasa_asmbl_13567.p1, internal, 12852, 13011
-recovered pasa_asmbl_13567.p1, internal, 13239, 13296
Valid prediction for GlimmerHMM_glimmerT_34812-T1
Valid prediction for snap_scaffold_14-snap.2503-T1
Valid prediction for snap_scaffold_14-snap.2507-T1
Valid prediction for GlimmerHMM_glimmerT_34832-T1
Valid prediction for GlimmerHMM_glimmerT_34815-T1
Couldn't classify 32995, 33165
Sorry, prediction pasa_asmbl_13565.p1 fails validation.
(AAA)	 TG	32995-33165	GT	AGG
(CGC)	 AG	33374-33562	TG	GAT
-recovered pasa_asmbl_13565.p1, terminal, 33374, 33562
Valid prediction for Augustus_model.g23279.t1
Valid prediction for GlimmerHMM_glimmerT_34826-T1
Valid prediction for snap_scaffold_14-snap.2505-T1
Valid prediction for pasa_asmbl_13568.p1
Valid prediction for snap_scaffold_14-snap.2498-T1
Valid prediction for GlimmerHMM_glimmerT_34820-T1
Valid prediction for CodingQuarry_transcript_15876-T1
Valid prediction for snap_scaffold_14-snap.2516-T1
Valid prediction for Augustus_model.g23284.t1
Couldn't classify 41995, 42534
Sorry, prediction pasa_asmbl_13561.p2 fails validation.
(GTG)	 AC	41995-42534	GC	GAG
Valid prediction for HiQ_model.g23291.t1
Valid prediction for HiQ_model.g23285.t1
Valid prediction for pasa_asmbl_13560.p1
Valid prediction for HiQ_model.g23290.t1
Valid prediction for Augustus_model.g23277.t1
Valid prediction for snap_scaffold_14-snap.2522-T1
Valid prediction for GlimmerHMM_glimmerT_34817-T1
Valid prediction for HiQ_model.g23281.t1
Valid prediction for CodingQuarry_transcript_15875-T1
Valid prediction for snap_scaffold_14-snap.2504-T1
Couldn't classify 13700, 13816
Couldn't classify 14677, 14772
Sorry, prediction pasa_asmbl_13803.p1 fails validation.
(GTG)	 AG	13700-13816	GT	AGG
(GTT)	 AG	13985-14115	GT	AAG
(GAC)	 AG	14209-14275	GT	AGG
(GGT)	 AG	14354-14445	GT	AAG
(GAA)	 AG	14535-14589	GT	AGG
(GAG)	 AG	14677-14772	TA	GGT
-recovered pasa_asmbl_13803.p1, internal, 13700, 13816
-recovered pasa_asmbl_13803.p1, internal, 13985, 14115
-recovered pasa_asmbl_13803.p1, internal, 14209, 14275
-recovered pasa_asmbl_13803.p1, internal, 14354, 14445
-recovered pasa_asmbl_13803.p1, internal, 14535, 14589
Valid prediction for snap_scaffold_14-snap.2519-T1
Valid prediction for GlimmerHMM_glimmerT_34830-T1
Valid prediction for snap_scaffold_14-snap.2501-T1
Valid prediction for snap_scaffold_14-snap.2496-T1
Valid prediction for Augustus_model.g23275.t1
Valid prediction for GlimmerHMM_glimmerT_34806-T1
Valid prediction for Augustus_model.g23282.t1
Valid prediction for GlimmerHMM_glimmerT_34822-T1
Valid prediction for CodingQuarry_transcript_15874-T1
Valid prediction for snap_scaffold_14-snap.2509-T1
Valid prediction for GlimmerHMM_glimmerT_34823-T1
Valid prediction for GlimmerHMM_glimmerT_34813-T1
Valid prediction for Augustus_model.g23278.t1
Valid prediction for GlimmerHMM_glimmerT_34810-T1
Valid prediction for CodingQuarry_transcript_15878-T1
Valid prediction for GlimmerHMM_glimmerT_34824-T1
Valid prediction for GlimmerHMM_glimmerT_34808-T1
Valid prediction for snap_scaffold_14-snap.2514-T1
Valid prediction for snap_scaffold_14-snap.2523-T1
Valid prediction for Augustus_model.g23288.t1
Valid prediction for snap_scaffold_14-snap.2525-T1
Valid prediction for snap_scaffold_14-snap.2513-T1
Valid prediction for pasa_asmbl_13828.p1
Valid prediction for snap_scaffold_14-snap.2493-T1
Valid prediction for Augustus_model.g23272.t1
Valid prediction for pasa_asmbl_13562.p1
Couldn't classify 133025, 133510
Sorry, prediction pasa_asmbl_13559.p2 fails validation.
(ATG)	 CT	133025-133510	GG	CAG
Valid prediction for snap_scaffold_14-snap.2520-T1
Valid prediction for snap_scaffold_14-snap.2527-T1
Valid prediction for snap_scaffold_14-snap.2521-T1
Valid prediction for GlimmerHMM_glimmerT_34818-T1
Valid prediction for HiQ_model.g23286.t1
Valid prediction for Augustus_model.g23276.t1
Valid prediction for GlimmerHMM_glimmerT_34809-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 20049, rend_intergenic: 17669  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26481, rend_intergenic: 25211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31611, rend_intergenic: 29613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39077, rend_intergenic: 35213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102433, rend_intergenic: 99975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106217, rend_intergenic: 105478  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 168842
-exon list size: 281


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.8    
3.2    
3.5    
3.9    
4.2    
4.6    
4.9    
5.3    
5.7    
6.0    
6.4    
6.7    
7.1    
7.4    
7.8    
8.1    
8.5    
8.8    
9.2    
9.5    
9.9    
10.2    
10.6    
11.0    
11.3    
11.7    
12.0    
12.4    
12.7    
13.1    
13.4    
13.8    
14.1    
14.5    
14.8    
15.2    
15.5    
15.9    
16.3    
16.6    
17.0    
17.3    
17.7    
18.0    
18.4    
18.7    
19.1    
19.4    
19.8    
20.1    
20.5    
20.8    
21.2    
21.6    
21.9    
22.3    
22.6    
23.0    
23.3    
23.7    
24.0    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.5    
26.9    
27.2    
27.6    
27.9    
28.3    
28.6    
29.0    
29.3    
29.7    
30.0    
30.4    
30.7    
31.1    
31.4    
31.8    
32.2    
32.5    
32.9    
33.2    
33.6    
33.9    
34.3    
34.6    
35.0    
35.3    
35.7    
36.0    
36.4    
36.7    
37.1    
37.5    
37.8    
38.2    
38.5    
38.9    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.3    
41.7    
42.0    
42.4    
42.8    
43.1    
43.5    
43.8    
44.2    
44.5    
44.9    
45.2    
45.6    
45.9    
46.3    
46.6    
47.0    
47.3    
47.7    
48.1    
48.4    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.6    
51.9    
52.3    
52.7    
53.0    
53.4    
53.7    
54.1    
54.4    
54.8    
55.1    
55.5    
55.8    
56.2    
56.5    
56.9    
57.2    
57.6    
58.0    
58.3    
58.7    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.1    
61.5    
61.8    
62.2    
62.5    
62.9    
63.3    
63.6    
64.0    
64.3    
64.7    
65.0    
65.4    
65.7    
66.1    
66.4    
66.8    
67.1    
67.5    
67.8    
68.2    
68.6    
68.9    
69.3    
69.6    
70.0    
70.3    
70.7    
71.0    
71.4    
71.7    
72.1    
72.4    
72.8    
73.1    
73.5    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
76.0    
76.3    
76.7    
77.0    
77.4    
77.7    
78.1    
78.4    
78.8    
79.2    
79.5    
79.9    
80.2    
80.6    
80.9    
81.3    
81.6    
82.0    
82.3    
82.7    
83.0    
83.4    
83.7    
84.1    
84.5    
84.8    
85.2    
85.5    
85.9    
86.2    
86.6    
86.9    
87.3    
87.6    
88.0    
88.3    
88.7    
89.0    
89.4    
89.8    
90.1    
90.5    
90.8    
91.2    
91.5    
91.9    
92.2    
92.6    
92.9    
93.3    
93.6    
94.0    
94.3    
94.7    
95.1    
95.4    
95.8    
96.1    
96.5    
96.8    
97.2    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 20049, rend_intergenic: 17669  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26481, rend_intergenic: 25211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31611, rend_intergenic: 29613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39077, rend_intergenic: 35213  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102433, rend_intergenic: 99975  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106217, rend_intergenic: 105478  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support