-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_14340018-14500549

-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 Augustus_model.g13890.t1
Valid prediction for GlimmerHMM_glimmerT_20842-T1
Valid prediction for snap_scaffold_8-snap.2638-T1
Valid prediction for GlimmerHMM_glimmerT_20832-T1
Valid prediction for GlimmerHMM_glimmerT_20831-T1
Valid prediction for snap_scaffold_8-snap.2609-T1
Valid prediction for GlimmerHMM_glimmerT_20835-T1
Valid prediction for GlimmerHMM_glimmerT_20838-T1
Valid prediction for CodingQuarry_transcript_59896-T1
Valid prediction for snap_scaffold_8-snap.2614-T1
Valid prediction for GlimmerHMM_glimmerT_20844-T1
Valid prediction for snap_scaffold_8-snap.2616-T1
Valid prediction for CodingQuarry_transcript_59897-T1
Valid prediction for GlimmerHMM_glimmerT_20828-T1
Valid prediction for snap_scaffold_8-snap.2607-T1
Valid prediction for Augustus_model.g13881.t1
Valid prediction for snap_scaffold_8-snap.2633-T1
Valid prediction for GlimmerHMM_glimmerT_20823-T1
Valid prediction for CodingQuarry_transcript_59892-T1
Valid prediction for snap_scaffold_8-snap.2636-T1
Valid prediction for snap_scaffold_8-snap.2634-T1
Valid prediction for snap_scaffold_8-snap.2608-T1
Valid prediction for GlimmerHMM_glimmerT_20839-T1
Valid prediction for snap_scaffold_8-snap.2618-T1
Valid prediction for pasa_asmbl_53369.p1
Valid prediction for Augustus_model.g13879.t1
Valid prediction for HiQ_model.g13884.t1
Valid prediction for snap_scaffold_8-snap.2626-T1
Valid prediction for snap_scaffold_8-snap.2613-T1
Valid prediction for snap_scaffold_8-snap.2625-T1
Valid prediction for GlimmerHMM_glimmerT_20834-T1
Valid prediction for snap_scaffold_8-snap.2622-T1
Couldn't classify 57605, 57729
Sorry, prediction pasa_asmbl_53368.p1 fails validation.
(TAT)	 TG	57605-57729	GT	AGG
(GTA)	 AG	57866-57955	GT	AAG
(GTG)	 AG	58106-58215	GT	CAG
(AAG)	 AG	58658-58744	GT	TGG
(AGG)	 AG	59013-59140	CG	GAC
-recovered pasa_asmbl_53368.p1, terminal, 59013, 59140
-recovered pasa_asmbl_53368.p1, internal, 57866, 57955
-recovered pasa_asmbl_53368.p1, internal, 58106, 58215
-recovered pasa_asmbl_53368.p1, internal, 58658, 58744
Valid prediction for snap_scaffold_8-snap.2632-T1
Valid prediction for Augustus_model.g13877.t1
Valid prediction for snap_scaffold_8-snap.2620-T1
Valid prediction for GlimmerHMM_glimmerT_20825-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_20826-T1
Valid prediction for GlimmerHMM_glimmerT_20837-T1
Valid prediction for Augustus_model.g13876.t1
Valid prediction for GlimmerHMM_glimmerT_20829-T1
Valid prediction for snap_scaffold_8-snap.2627-T1
Valid prediction for pasa_asmbl_52315.p1
Valid prediction for snap_scaffold_8-snap.2631-T1
Valid prediction for HiQ_model.g13880.t1
Valid prediction for pasa_asmbl_52317.p1
Valid prediction for GlimmerHMM_glimmerT_20833-T1
Valid prediction for snap_scaffold_8-snap.2615-T1
Valid prediction for snap_scaffold_8-snap.2611-T1
Valid prediction for snap_scaffold_8-snap.2630-T1
Valid prediction for snap_scaffold_8-snap.2606-T1
Valid prediction for pasa_asmbl_52313.p1
Valid prediction for Augustus_model.g13887.t1
Valid prediction for CodingQuarry_transcript_59895-T1
Valid prediction for snap_scaffold_8-snap.2624-T1
Valid prediction for CodingQuarry_transcript_59893-T1
Valid prediction for Augustus_model.g13878.t1
Valid prediction for snap_scaffold_8-snap.2623-T1
Valid prediction for GlimmerHMM_glimmerT_20840-T1
Valid prediction for snap_scaffold_8-snap.2628-T1
Valid prediction for CodingQuarry_transcript_59891-T1
Valid prediction for Augustus_model.g13889.t1
Valid prediction for GlimmerHMM_glimmerT_20827-T1
Valid prediction for GlimmerHMM_glimmerT_20824-T1
Valid prediction for Augustus_model.g13888.t1
Valid prediction for snap_scaffold_8-snap.2635-T1
Valid prediction for snap_scaffold_8-snap.2610-T1
Valid prediction for snap_scaffold_8-snap.2629-T1
Valid prediction for GlimmerHMM_glimmerT_20836-T1
Valid prediction for snap_scaffold_8-snap.2617-T1
Valid prediction for HiQ_model.g13882.t1
Valid prediction for Augustus_model.g13886.t1
Valid prediction for GlimmerHMM_glimmerT_20843-T1
Valid prediction for GlimmerHMM_glimmerT_20830-T1
Valid prediction for snap_scaffold_8-snap.2637-T1
Valid prediction for HiQ_model.g13883.t1
Valid prediction for GlimmerHMM_glimmerT_20841-T1
Valid prediction for snap_scaffold_8-snap.2612-T1
Valid prediction for CodingQuarry_transcript_59894-T1
Valid prediction for snap_scaffold_8-snap.2619-T1
Valid prediction for snap_scaffold_8-snap.2639-T1
Valid prediction for snap_scaffold_8-snap.2621-T1
Couldn't classify 111061, 111282
Sorry, prediction pasa_asmbl_52307.p1 fails validation.
(CAG)	 TT	111061-111282	GT	TGG
(ATT)	 AG	111435-111557	GT	CTG
(GAT)	 AG	111844-112023	GT	AGG
(GCG)	 AG	112222-112461	GT	AGG
(ATA)	 AG	113069-113212	GT	CGG
(GTC)	 AG	113729-113908	AC	AGA
-recovered pasa_asmbl_52307.p1, terminal, 113729, 113908
-recovered pasa_asmbl_52307.p1, internal, 111435, 111557
-recovered pasa_asmbl_52307.p1, internal, 111844, 112023
-recovered pasa_asmbl_52307.p1, internal, 112222, 112461
-recovered pasa_asmbl_52307.p1, internal, 113069, 113212
Valid prediction for HiQ_model.g13885.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16155, rend_intergenic: 5005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27783, rend_intergenic: 25250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40427, rend_intergenic: 35546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54390, rend_intergenic: 45810  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67127, rend_intergenic: 62369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68802, rend_intergenic: 68572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140319, rend_intergenic: 117792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143695, rend_intergenic: 140578  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146522, rend_intergenic: 144741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153828, rend_intergenic: 147358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154945, rend_intergenic: 154050  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 160532
-exon list size: 310


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.2    
2.6    
2.9    
3.2    
3.5    
3.8    
4.2    
4.5    
4.8    
5.1    
5.4    
5.8    
6.1    
6.4    
6.7    
7.1    
7.4    
7.7    
8.0    
8.3    
8.7    
9.0    
9.3    
9.6    
9.9    
10.3    
10.6    
10.9    
11.2    
11.5    
11.9    
12.2    
12.5    
12.8    
13.1    
13.5    
13.8    
14.1    
14.4    
14.7    
15.1    
15.4    
15.7    
16.0    
16.3    
16.7    
17.0    
17.3    
17.6    
17.9    
18.3    
18.6    
18.9    
19.2    
19.6    
19.9    
20.2    
20.5    
20.8    
21.2    
21.5    
21.8    
22.1    
22.4    
22.8    
23.1    
23.4    
23.7    
24.0    
24.4    
24.7    
25.0    
25.3    
25.6    
26.0    
26.3    
26.6    
26.9    
27.2    
27.6    
27.9    
28.2    
28.5    
28.8    
29.2    
29.5    
29.8    
30.1    
30.4    
30.8    
31.1    
31.4    
31.7    
32.1    
32.4    
32.7    
33.0    
33.3    
33.7    
34.0    
34.3    
34.6    
34.9    
35.3    
35.6    
35.9    
36.2    
36.5    
36.9    
37.2    
37.5    
37.8    
38.1    
38.5    
38.8    
39.1    
39.4    
39.7    
40.1    
40.4    
40.7    
41.0    
41.3    
41.7    
42.0    
42.3    
42.6    
42.9    
43.3    
43.6    
43.9    
44.2    
44.6    
44.9    
45.2    
45.5    
45.8    
46.2    
46.5    
46.8    
47.1    
47.4    
47.8    
48.1    
48.4    
48.7    
49.0    
49.4    
49.7    
50.0    
50.3    
50.6    
51.0    
51.3    
51.6    
51.9    
52.2    
52.6    
52.9    
53.2    
53.5    
53.8    
54.2    
54.5    
54.8    
55.1    
55.4    
55.8    
56.1    
56.4    
56.7    
57.1    
57.4    
57.7    
58.0    
58.3    
58.7    
59.0    
59.3    
59.6    
59.9    
60.3    
60.6    
60.9    
61.2    
61.5    
61.9    
62.2    
62.5    
62.8    
63.1    
63.5    
63.8    
64.1    
64.4    
64.7    
65.1    
65.4    
65.7    
66.0    
66.3    
66.7    
67.0    
67.3    
67.6    
67.9    
68.3    
68.6    
68.9    
69.2    
69.6    
69.9    
70.2    
70.5    
70.8    
71.2    
71.5    
71.8    
72.1    
72.4    
72.8    
73.1    
73.4    
73.7    
74.0    
74.4    
74.7    
75.0    
75.3    
75.6    
76.0    
76.3    
76.6    
76.9    
77.2    
77.6    
77.9    
78.2    
78.5    
78.8    
79.2    
79.5    
79.8    
80.1    
80.4    
80.8    
81.1    
81.4    
81.7    
82.1    
82.4    
82.7    
83.0    
83.3    
83.7    
84.0    
84.3    
84.6    
84.9    
85.3    
85.6    
85.9    
86.2    
86.5    
86.9    
87.2    
87.5    
87.8    
88.1    
88.5    
88.8    
89.1    
89.4    
89.7    
90.1    
90.4    
90.7    
91.0    
91.3    
91.7    
92.0    
92.3    
92.6    
92.9    
93.3    
93.6    
93.9    
94.2    
94.6    
94.9    
95.2    
95.5    
95.8    
96.2    
96.5    
96.8    
97.1    
97.4    
97.8    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 16155, rend_intergenic: 5005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27783, rend_intergenic: 25250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40427, rend_intergenic: 35546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54390, rend_intergenic: 45810  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67127, rend_intergenic: 62369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68802, rend_intergenic: 68572  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140319, rend_intergenic: 117792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143695, rend_intergenic: 140578  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146522, rend_intergenic: 144741  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153828, rend_intergenic: 147358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154945, rend_intergenic: 154050  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support