-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_8448452-8614208

-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_42780-T1
Valid prediction for Augustus_model.g28541.t1
Valid prediction for snap_scaffold_18-snap.1806-T1
Valid prediction for CodingQuarry_transcript_23856-T1
Valid prediction for GlimmerHMM_glimmerT_42771-T1
Valid prediction for GlimmerHMM_glimmerT_42783-T1
Valid prediction for GlimmerHMM_glimmerT_42779-T1
Valid prediction for snap_scaffold_18-snap.1799-T1
Valid prediction for snap_scaffold_18-snap.1780-T1
Valid prediction for snap_scaffold_18-snap.1810-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g28543.t1
Valid prediction for snap_scaffold_18-snap.1774-T1
Couldn't classify 141532, 141594
Sorry, prediction pasa_asmbl_20846.p2 fails validation.
(GGC)	 GG	141532-141594	GT	GGG
(GAA)	 AG	141864-141967	GT	ACG
(GTT)	 AG	142704-142808	GT	CGG
(AAC)	 AG	144625-144666	GT	AGG
(AAG)	 AG	144810-144816	GG	AAG
-recovered pasa_asmbl_20846.p2, terminal, 144810, 144816
-recovered pasa_asmbl_20846.p2, internal, 141864, 141967
-recovered pasa_asmbl_20846.p2, internal, 142704, 142808
-recovered pasa_asmbl_20846.p2, internal, 144625, 144666
Valid prediction for Augustus_model.g28538.t1
Valid prediction for GlimmerHMM_glimmerT_42781-T1
Valid prediction for CodingQuarry_transcript_23855-T1
Valid prediction for snap_scaffold_18-snap.1783-T1
Valid prediction for GlimmerHMM_glimmerT_42777-T1
Valid prediction for GlimmerHMM_glimmerT_42778-T1
Valid prediction for snap_scaffold_18-snap.1804-T1
Couldn't classify 101561, 101602
Couldn't classify 103482, 103534
Sorry, prediction pasa_asmbl_21138.p1 fails validation.
(GCA)	 TC	101561-101602	GT	AGG
(GAT)	 AG	101807-101908	GT	AGG
(GGC)	 AG	102007-102172	GT	AGG
(AGA)	 AG	103482-103534	GG	AAG
-recovered pasa_asmbl_21138.p1, internal, 101807, 101908
-recovered pasa_asmbl_21138.p1, internal, 102007, 102172
Valid prediction for GlimmerHMM_glimmerT_42773-T1
Valid prediction for Augustus_model.g28542.t1
Valid prediction for GlimmerHMM_glimmerT_42786-T1
Couldn't classify 141532, 141594
Sorry, prediction pasa_asmbl_20848.p1 fails validation.
(GGC)	 GG	141532-141594	GT	GGG
(GAA)	 AG	141864-141967	GT	ACG
(GTT)	 AG	142704-142808	GT	CGG
(AAC)	 AG	144625-144666	GT	AGG
(CCA)	 AG	146826-146901	GT	AGG
(GTG)	 AG	148677-148730	GT	CTG
(GTA)	 AG	148986-149047	GT	GGG
(GCC)	 AG	150203-150233	AG	GAA
-recovered pasa_asmbl_20848.p1, terminal, 150203, 150233
-recovered pasa_asmbl_20848.p1, internal, 141864, 141967
-recovered pasa_asmbl_20848.p1, internal, 142704, 142808
-recovered pasa_asmbl_20848.p1, internal, 144625, 144666
-recovered pasa_asmbl_20848.p1, internal, 146826, 146901
-recovered pasa_asmbl_20848.p1, internal, 148677, 148730
-recovered pasa_asmbl_20848.p1, internal, 148986, 149047
Valid prediction for Augustus_model.g28546.t1
Valid prediction for snap_scaffold_18-snap.1800-T1
Valid prediction for snap_scaffold_18-snap.1792-T1
Valid prediction for snap_scaffold_18-snap.1795-T1
Valid prediction for GlimmerHMM_glimmerT_42788-T1
Valid prediction for snap_scaffold_18-snap.1789-T1
Valid prediction for Augustus_model.g28547.t1
Valid prediction for snap_scaffold_18-snap.1777-T1
Valid prediction for snap_scaffold_18-snap.1803-T1
Valid prediction for CodingQuarry_transcript_23854-T1
Valid prediction for snap_scaffold_18-snap.1785-T1
Valid prediction for Augustus_model.g28537.t1
Valid prediction for snap_scaffold_18-snap.1794-T1
Valid prediction for Augustus_model.g28545.t1
Valid prediction for snap_scaffold_18-snap.1802-T1
Valid prediction for snap_scaffold_18-snap.1790-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_18-snap.1797-T1
Valid prediction for snap_scaffold_18-snap.1781-T1
Valid prediction for snap_scaffold_18-snap.1775-T1
Valid prediction for snap_scaffold_18-snap.1779-T1
Valid prediction for Augustus_model.g28536.t1
Valid prediction for snap_scaffold_18-snap.1787-T1
Valid prediction for snap_scaffold_18-snap.1784-T1
Valid prediction for snap_scaffold_18-snap.1776-T1
Valid prediction for snap_scaffold_18-snap.1809-T1
Valid prediction for Augustus_model.g28535.t1
Valid prediction for snap_scaffold_18-snap.1793-T1
Valid prediction for snap_scaffold_18-snap.1807-T1
Valid prediction for snap_scaffold_18-snap.1782-T1
Valid prediction for snap_scaffold_18-snap.1786-T1
Valid prediction for Augustus_model.g28539.t1
Valid prediction for GlimmerHMM_glimmerT_42782-T1
Valid prediction for GlimmerHMM_glimmerT_42775-T1
Valid prediction for GlimmerHMM_glimmerT_42770-T1
Valid prediction for snap_scaffold_18-snap.1805-T1
Valid prediction for Augustus_model.g28544.t1
Valid prediction for GlimmerHMM_glimmerT_42772-T1
Valid prediction for snap_scaffold_18-snap.1791-T1
Valid prediction for snap_scaffold_18-snap.1796-T1
Valid prediction for GlimmerHMM_glimmerT_42769-T1
Valid prediction for GlimmerHMM_glimmerT_42774-T1
Valid prediction for GlimmerHMM_glimmerT_42768-T1
Valid prediction for snap_scaffold_18-snap.1798-T1
Valid prediction for GlimmerHMM_glimmerT_42776-T1
Valid prediction for snap_scaffold_18-snap.1808-T1
Valid prediction for snap_scaffold_18-snap.1778-T1
Valid prediction for GlimmerHMM_glimmerT_42784-T1
Valid prediction for snap_scaffold_18-snap.1801-T1
Valid prediction for GlimmerHMM_glimmerT_42785-T1
Valid prediction for snap_scaffold_18-snap.1788-T1
Valid prediction for Augustus_model.g28540.t1
Valid prediction for GlimmerHMM_glimmerT_42787-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21932, rend_intergenic: 10524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42212, rend_intergenic: 37432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52659, rend_intergenic: 43479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57982, rend_intergenic: 56705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61404, rend_intergenic: 58143  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84450, rend_intergenic: 81738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89637, rend_intergenic: 86010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92102, rend_intergenic: 89656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108155, rend_intergenic: 94352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119123, rend_intergenic: 114124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123171, rend_intergenic: 119132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132488, rend_intergenic: 125529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135591, rend_intergenic: 133300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154966, rend_intergenic: 136232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164253, rend_intergenic: 155053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 165757
-exon list size: 414


building trellis

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0.7    
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1.2    
1.4    
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2.9    
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3.6    
3.8    
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10.3    
10.6    
10.8    
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11.3    
11.5    
11.8    
12.0    
12.3    
12.5    
12.7    
13.0    
13.2    
13.5    
13.7    
13.9    
14.2    
14.4    
14.7    
14.9    
15.1    
15.4    
15.6    
15.9    
16.1    
16.3    
16.6    
16.8    
17.1    
17.3    
17.5    
17.8    
18.0    
18.3    
18.5    
18.8    
19.0    
19.2    
19.5    
19.7    
20.0    
20.2    
20.4    
20.7    
20.9    
21.2    
21.4    
21.6    
21.9    
22.1    
22.4    
22.6    
22.8    
23.1    
23.3    
23.6    
23.8    
24.0    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
26.0    
26.2    
26.4    
26.7    
26.9    
27.2    
27.4    
27.6    
27.9    
28.1    
28.4    
28.6    
28.8    
29.1    
29.3    
29.6    
29.8    
30.0    
30.3    
30.5    
30.8    
31.0    
31.2    
31.5    
31.7    
32.0    
32.2    
32.5    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.1    
34.4    
34.6    
34.9    
35.1    
35.3    
35.6    
35.8    
36.1    
36.3    
36.5    
36.8    
37.0    
37.3    
37.5    
37.7    
38.0    
38.2    
38.5    
38.7    
38.9    
39.2    
39.4    
39.7    
39.9    
40.1    
40.4    
40.6    
40.9    
41.1    
41.3    
41.6    
41.8    
42.1    
42.3    
42.5    
42.8    
43.0    
43.3    
43.5    
43.8    
44.0    
44.2    
44.5    
44.7    
45.0    
45.2    
45.4    
45.7    
45.9    
46.2    
46.4    
46.6    
46.9    
47.1    
47.4    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.4    
51.7    
51.9    
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52.6    
52.9    
53.1    
53.4    
53.6    
53.8    
54.1    
54.3    
54.6    
54.8    
55.0    
55.3    
55.5    
55.8    
56.0    
56.2    
56.5    
56.7    
57.0    
57.2    
57.5    
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57.9    
58.2    
58.4    
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59.6    
59.9    
60.1    
60.3    
60.6    
60.8    
61.1    
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61.5    
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62.0    
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63.0    
63.2    
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63.9    
64.2    
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65.1    
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65.6    
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66.3    
66.6    
66.8    
67.1    
67.3    
67.5    
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68.0    
68.3    
68.5    
68.8    
69.0    
69.2    
69.5    
69.7    
70.0    
70.2    
70.4    
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70.9    
71.2    
71.4    
71.6    
71.9    
72.1    
72.4    
72.6    
72.8    
73.1    
73.3    
73.6    
73.8    
74.0    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
76.0    
76.2    
76.4    
76.7    
76.9    
77.2    
77.4    
77.6    
77.9    
78.1    
78.4    
78.6    
78.8    
79.1    
79.3    
79.6    
79.8    
80.0    
80.3    
80.5    
80.8    
81.0    
81.2    
81.5    
81.7    
82.0    
82.2    
82.5    
82.7    
82.9    
83.2    
83.4    
83.7    
83.9    
84.1    
84.4    
84.6    
84.9    
85.1    
85.3    
85.6    
85.8    
86.1    
86.3    
86.5    
86.8    
87.0    
87.3    
87.5    
87.7    
88.0    
88.2    
88.5    
88.7    
88.9    
89.2    
89.4    
89.7    
89.9    
90.1    
90.4    
90.6    
90.9    
91.1    
91.3    
91.6    
91.8    
92.1    
92.3    
92.5    
92.8    
93.0    
93.3    
93.5    
93.8    
94.0    
94.2    
94.5    
94.7    
95.0    
95.2    
95.4    
95.7    
95.9    
96.2    
96.4    
96.6    
96.9    
97.1    
97.4    
97.6    
97.8    
98.1    
98.3    
98.6    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 21932, rend_intergenic: 10524  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42212, rend_intergenic: 37432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52659, rend_intergenic: 43479  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57982, rend_intergenic: 56705  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61404, rend_intergenic: 58143  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84450, rend_intergenic: 81738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89637, rend_intergenic: 86010  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92102, rend_intergenic: 89656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108155, rend_intergenic: 94352  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119123, rend_intergenic: 114124  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123171, rend_intergenic: 119132  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132488, rend_intergenic: 125529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135591, rend_intergenic: 133300  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154966, rend_intergenic: 136232  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164253, rend_intergenic: 155053  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support