-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_8418850-8595208

-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_48228-T1
Valid prediction for pasa_asmbl_28816.p1
Valid prediction for snap_scaffold_21-snap.1810-T1
Valid prediction for snap_scaffold_21-snap.1798-T1
Valid prediction for GlimmerHMM_glimmerT_48219-T1
Couldn't classify 147531, 147738
Couldn't classify 148022, 148125
Sorry, prediction pasa_asmbl_28983.p2 fails validation.
(AGC)	 AC	147531-147738	GT	AGG
(CAA)	 AG	148022-148125	TA	AAT
Valid prediction for Augustus_model.g32228.t1
Valid prediction for GlimmerHMM_glimmerT_48234-T1
Valid prediction for Augustus_model.g32211.t1
Valid prediction for GlimmerHMM_glimmerT_48227-T1
Valid prediction for Augustus_model.g32217.t1
Valid prediction for GlimmerHMM_glimmerT_48241-T1
Valid prediction for GlimmerHMM_glimmerT_48240-T1
Valid prediction for snap_scaffold_21-snap.1819-T1
Valid prediction for snap_scaffold_21-snap.1785-T1
Valid prediction for GlimmerHMM_glimmerT_48239-T1
Valid prediction for HiQ_model.g32221.t1
Valid prediction for GlimmerHMM_glimmerT_48231-T1
Valid prediction for pasa_asmbl_28830.p1
Valid prediction for GlimmerHMM_glimmerT_48243-T1
Valid prediction for GlimmerHMM_glimmerT_48232-T1
Valid prediction for GlimmerHMM_glimmerT_48215-T1
Couldn't classify 153543, 153731
Couldn't classify 154686, 154803
Sorry, prediction pasa_asmbl_28828.p1 fails validation.
(CTC)	 CT	153543-153731	GT	ACG
(GCT)	 AG	153916-154153	GT	CCG
(GAA)	 AG	154314-154488	GT	AGG
(GGA)	 AG	154686-154803	AC	GGA
-recovered pasa_asmbl_28828.p1, internal, 153916, 154153
-recovered pasa_asmbl_28828.p1, internal, 154314, 154488
Valid prediction for GlimmerHMM_glimmerT_48222-T1
Couldn't classify 151006, 151049
Couldn't classify 151574, 151728
Sorry, prediction pasa_asmbl_28826.p1 fails validation.
(TCC)	 CC	151006-151049	GT	CGG
(GTA)	 AG	151222-151340	GT	AGG
(ATC)	 AG	151574-151728	GA	GCG
-recovered pasa_asmbl_28826.p1, internal, 151222, 151340
Valid prediction for GlimmerHMM_glimmerT_48217-T1
Valid prediction for Augustus_model.g32225.t1
Valid prediction for Augustus_model.g32219.t1
Valid prediction for snap_scaffold_21-snap.1791-T1
Valid prediction for Augustus_model.g32227.t1
Valid prediction for snap_scaffold_21-snap.1801-T1
Valid prediction for snap_scaffold_21-snap.1795-T1
Valid prediction for Augustus_model.g32224.t1
Valid prediction for Augustus_model.g32231.t1
Valid prediction for snap_scaffold_21-snap.1815-T1
Valid prediction for Augustus_model.g32213.t1
Valid prediction for snap_scaffold_21-snap.1788-T1
Valid prediction for snap_scaffold_21-snap.1816-T1
Valid prediction for Augustus_model.g32215.t1
Valid prediction for GlimmerHMM_glimmerT_48224-T1
Valid prediction for snap_scaffold_21-snap.1813-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_48245-T1
Valid prediction for snap_scaffold_21-snap.1803-T1
Valid prediction for Augustus_model.g32226.t1
Valid prediction for GlimmerHMM_glimmerT_48226-T1
Valid prediction for GlimmerHMM_glimmerT_48218-T1
Couldn't classify 126642, 126702
Sorry, prediction pasa_asmbl_28823.p1 fails validation.
(GTG)	 AG	126642-126702	GT	AGG
(GTT)	 AG	126834-126878	GT	AGG
(CTG)	 AG	127089-127231	GT	GGG
(CTT)	 AG	127338-128021	AC	AAA
-recovered pasa_asmbl_28823.p1, terminal, 127338, 128021
-recovered pasa_asmbl_28823.p1, internal, 126642, 126702
-recovered pasa_asmbl_28823.p1, internal, 126834, 126878
-recovered pasa_asmbl_28823.p1, internal, 127089, 127231
Valid prediction for snap_scaffold_21-snap.1807-T1
Valid prediction for GlimmerHMM_glimmerT_48235-T1
Valid prediction for snap_scaffold_21-snap.1805-T1
Valid prediction for Augustus_model.g32214.t1
Valid prediction for snap_scaffold_21-snap.1824-T1
Valid prediction for snap_scaffold_21-snap.1802-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_21-snap.1806-T1
Valid prediction for snap_scaffold_21-snap.1814-T1
Valid prediction for CodingQuarry_transcript_32678-T1
Valid prediction for GlimmerHMM_glimmerT_48223-T1
Valid prediction for snap_scaffold_21-snap.1808-T1
Valid prediction for GlimmerHMM_glimmerT_48216-T1
Valid prediction for snap_scaffold_21-snap.1799-T1
Valid prediction for snap_scaffold_21-snap.1821-T1
Valid prediction for GlimmerHMM_glimmerT_48220-T1
Valid prediction for snap_scaffold_21-snap.1817-T1
Valid prediction for Augustus_model.g32220.t1
Valid prediction for GlimmerHMM_glimmerT_48242-T1
Valid prediction for Augustus_model.g32212.t1
Valid prediction for snap_scaffold_21-snap.1794-T1
Valid prediction for GlimmerHMM_glimmerT_48225-T1
Valid prediction for snap_scaffold_21-snap.1820-T1
Valid prediction for HiQ_model.g32223.t1
Valid prediction for GlimmerHMM_glimmerT_48233-T1
Valid prediction for Augustus_model.g32218.t1
Valid prediction for snap_scaffold_21-snap.1823-T1
Valid prediction for GlimmerHMM_glimmerT_48236-T1
Valid prediction for snap_scaffold_21-snap.1822-T1
Valid prediction for snap_scaffold_21-snap.1796-T1
Valid prediction for snap_scaffold_21-snap.1792-T1
Valid prediction for snap_scaffold_21-snap.1797-T1
Valid prediction for pasa_asmbl_27931.p1
Valid prediction for GlimmerHMM_glimmerT_48221-T1
Valid prediction for Augustus_model.g32216.t1
Valid prediction for snap_scaffold_21-snap.1800-T1
Valid prediction for GlimmerHMM_glimmerT_48244-T1
Valid prediction for snap_scaffold_21-snap.1809-T1
Valid prediction for snap_scaffold_21-snap.1789-T1
Valid prediction for snap_scaffold_21-snap.1811-T1
Valid prediction for HiQ_model.g32222.t1
Valid prediction for GlimmerHMM_glimmerT_48237-T1
Valid prediction for GlimmerHMM_glimmerT_48238-T1
Valid prediction for Augustus_model.g32229.t1
Valid prediction for CodingQuarry_transcript_32676-T1
Valid prediction for snap_scaffold_21-snap.1786-T1
Valid prediction for snap_scaffold_21-snap.1812-T1
Valid prediction for snap_scaffold_21-snap.1804-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for snap_scaffold_21-snap.1793-T1
Valid prediction for GlimmerHMM_glimmerT_48229-T1
Valid prediction for snap_scaffold_21-snap.1818-T1
Valid prediction for HiQ_model.g32230.t1
Valid prediction for snap_scaffold_21-snap.1790-T1
Valid prediction for snap_scaffold_21-snap.1787-T1
Valid prediction for GlimmerHMM_glimmerT_48230-T1
Valid prediction for pasa_asmbl_27928.p1
Couldn't classify 3852, 4178
Sorry, prediction pasa_asmbl_27935.p4 fails validation.
(AGC)	 AC	3852-4178	GT	CAG
(AAC)	 AG	5277-5288	TC	GAT
-recovered pasa_asmbl_27935.p4, terminal, 5277, 5288
Valid prediction for CodingQuarry_transcript_32677-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11581, rend_intergenic: 10454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19122, rend_intergenic: 17032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22026, rend_intergenic: 19784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29955, rend_intergenic: 24721  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34224, rend_intergenic: 31732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58376, rend_intergenic: 56211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64231, rend_intergenic: 61397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71736, rend_intergenic: 67547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155357, rend_intergenic: 152616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160876, rend_intergenic: 156988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165035, rend_intergenic: 161513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174757, rend_intergenic: 172362  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 176359
-exon list size: 353


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
2.0    
2.3    
2.5    
2.8    
3.1    
3.4    
3.7    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.6    
5.9    
6.2    
6.5    
6.8    
7.0    
7.3    
7.6    
7.9    
8.2    
8.5    
8.7    
9.0    
9.3    
9.6    
9.9    
10.1    
10.4    
10.7    
11.0    
11.3    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.2    
13.5    
13.8    
14.1    
14.4    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.3    
16.6    
16.9    
17.2    
17.5    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.4    
19.7    
20.0    
20.3    
20.6    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.5    
22.8    
23.1    
23.4    
23.7    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.6    
25.9    
26.2    
26.5    
26.8    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.7    
29.0    
29.3    
29.6    
29.9    
30.1    
30.4    
30.7    
31.0    
31.3    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.4    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.3    
36.6    
36.9    
37.2    
37.5    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.4    
39.7    
40.0    
40.3    
40.6    
40.8    
41.1    
41.4    
41.7    
42.0    
42.3    
42.5    
42.8    
43.1    
43.4    
43.7    
43.9    
44.2    
44.5    
44.8    
45.1    
45.4    
45.6    
45.9    
46.2    
46.5    
46.8    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.7    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.3    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.2    
53.5    
53.8    
54.1    
54.4    
54.6    
54.9    
55.2    
55.5    
55.8    
56.1    
56.3    
56.6    
56.9    
57.2    
57.5    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.4    
59.7    
60.0    
60.3    
60.6    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.5    
62.8    
63.1    
63.4    
63.7    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.6    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.7    
69.0    
69.3    
69.6    
69.9    
70.1    
70.4    
70.7    
71.0    
71.3    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.2    
73.5    
73.8    
74.1    
74.4    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.3    
76.6    
76.9    
77.2    
77.5    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.4    
79.7    
80.0    
80.3    
80.6    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.5    
82.8    
83.1    
83.4    
83.7    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.6    
85.9    
86.2    
86.5    
86.8    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.7    
89.0    
89.3    
89.6    
89.9    
90.1    
90.4    
90.7    
91.0    
91.3    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.2    
93.5    
93.8    
94.1    
94.4    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.3    
96.6    
96.9    
97.2    
97.5    
97.7    
98.0    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 11581, rend_intergenic: 10454  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19122, rend_intergenic: 17032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22026, rend_intergenic: 19784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 29955, rend_intergenic: 24721  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34224, rend_intergenic: 31732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58376, rend_intergenic: 56211  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64231, rend_intergenic: 61397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71736, rend_intergenic: 67547  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155357, rend_intergenic: 152616  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160876, rend_intergenic: 156988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165035, rend_intergenic: 161513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174757, rend_intergenic: 172362  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 26 predictions persist after filtering for low support