-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_7536318-7760513

-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_20042-T1
Valid prediction for snap_scaffold_8-snap.1474-T1
Valid prediction for snap_scaffold_8-snap.1462-T1
Valid prediction for snap_scaffold_8-snap.1471-T1
Valid prediction for snap_scaffold_8-snap.1451-T1
Valid prediction for snap_scaffold_8-snap.1479-T1
Valid prediction for HiQ_model.g13333.t1
Valid prediction for snap_scaffold_8-snap.1483-T1
Valid prediction for snap_scaffold_8-snap.1458-T1
Valid prediction for Augustus_model.g13328.t1
Valid prediction for snap_scaffold_8-snap.1454-T1
Valid prediction for snap_scaffold_8-snap.1473-T1
Valid prediction for snap_scaffold_8-snap.1488-T1
Valid prediction for Augustus_model.g13326.t1
Valid prediction for snap_scaffold_8-snap.1463-T1
Valid prediction for snap_scaffold_8-snap.1466-T1
Valid prediction for GlimmerHMM_glimmerT_20034-T1
Valid prediction for snap_scaffold_8-snap.1470-T1
Valid prediction for GlimmerHMM_glimmerT_20038-T1
Couldn't classify 187719, 187759
Sorry, prediction pasa_asmbl_52994.p1 fails validation.
(CAC)	 AC	187719-187759	GT	GAG
(ACC)	 AG	188479-188662	GT	AGG
(GAG)	 AG	188791-188918	GT	GAG
(GAT)	 AG	189047-189110	GT	ATG
(ATC)	 AG	190019-190066	GT	TGG
(AGA)	 AG	190283-190344	GT	CGG
(ATT)	 AG	190607-190651	GT	TGG
(CCG)	 AG	191627-191702	GT	AGG
(CTA)	 AG	191819-191865	GT	AGG
(TCT)	 AG	192497-192565	GT	ACG
(TGG)	 AG	193068-193145	GT	TGG
(TCT)	 AG	193490-193638	GT	AGG
(GGG)	 AG	193870-194054	GT	AGG
(GGG)	 AG	194262-194453	GT	GGG
(GTG)	 AG	194619-194762	AG	GAA
-recovered pasa_asmbl_52994.p1, terminal, 194619, 194762
-recovered pasa_asmbl_52994.p1, internal, 188479, 188662
-recovered pasa_asmbl_52994.p1, internal, 188791, 188918
-recovered pasa_asmbl_52994.p1, internal, 189047, 189110
-recovered pasa_asmbl_52994.p1, internal, 190019, 190066
-recovered pasa_asmbl_52994.p1, internal, 190283, 190344
-recovered pasa_asmbl_52994.p1, internal, 190607, 190651
-recovered pasa_asmbl_52994.p1, internal, 191627, 191702
-recovered pasa_asmbl_52994.p1, internal, 191819, 191865
-recovered pasa_asmbl_52994.p1, internal, 192497, 192565
-recovered pasa_asmbl_52994.p1, internal, 193068, 193145
-recovered pasa_asmbl_52994.p1, internal, 193490, 193638
-recovered pasa_asmbl_52994.p1, internal, 193870, 194054
-recovered pasa_asmbl_52994.p1, internal, 194262, 194453
Valid prediction for snap_scaffold_8-snap.1453-T1
Valid prediction for snap_scaffold_8-snap.1486-T1
Valid prediction for snap_scaffold_8-snap.1452-T1
Valid prediction for GlimmerHMM_glimmerT_20049-T1
Valid prediction for snap_scaffold_8-snap.1475-T1
Valid prediction for GlimmerHMM_glimmerT_20035-T1
Valid prediction for snap_scaffold_8-snap.1450-T1
Valid prediction for GlimmerHMM_glimmerT_20036-T1
Valid prediction for snap_scaffold_8-snap.1457-T1
Valid prediction for GlimmerHMM_glimmerT_20055-T1
Valid prediction for snap_scaffold_8-snap.1484-T1
Valid prediction for Augustus_model.g13325.t1
Valid prediction for GlimmerHMM_glimmerT_20046-T1
Valid prediction for snap_scaffold_8-snap.1477-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_20052-T1
Valid prediction for GlimmerHMM_glimmerT_20041-T1
Valid prediction for snap_scaffold_8-snap.1478-T1
Valid prediction for GlimmerHMM_glimmerT_20047-T1
Valid prediction for snap_scaffold_8-snap.1490-T1
Valid prediction for Augustus_model.g13330.t1
Valid prediction for GlimmerHMM_glimmerT_20051-T1
Valid prediction for GlimmerHMM_glimmerT_20039-T1
Valid prediction for snap_scaffold_8-snap.1469-T1
Valid prediction for Augustus_model.g13334.t1
Valid prediction for Augustus_model.g13332.t1
Valid prediction for snap_scaffold_8-snap.1467-T1
Valid prediction for Augustus_model.g13327.t1
Valid prediction for snap_scaffold_8-snap.1482-T1
Valid prediction for snap_scaffold_8-snap.1455-T1
Valid prediction for snap_scaffold_8-snap.1476-T1
Valid prediction for snap_scaffold_8-snap.1459-T1
Valid prediction for snap_scaffold_8-snap.1461-T1
Valid prediction for snap_scaffold_8-snap.1485-T1
Valid prediction for GlimmerHMM_glimmerT_20054-T1
Valid prediction for GlimmerHMM_glimmerT_20048-T1
Valid prediction for snap_scaffold_8-snap.1460-T1
Valid prediction for snap_scaffold_8-snap.1489-T1
Valid prediction for snap_scaffold_8-snap.1464-T1
Valid prediction for snap_scaffold_8-snap.1472-T1
Valid prediction for snap_scaffold_8-snap.1480-T1
Valid prediction for GlimmerHMM_glimmerT_20040-T1
Valid prediction for GlimmerHMM_glimmerT_20037-T1
Valid prediction for GlimmerHMM_glimmerT_20045-T1
Valid prediction for snap_scaffold_8-snap.1465-T1
Valid prediction for Augustus_model.g13329.t1
Valid prediction for snap_scaffold_8-snap.1481-T1
Valid prediction for GlimmerHMM_glimmerT_20033-T1
Valid prediction for GlimmerHMM_glimmerT_20043-T1
Valid prediction for snap_scaffold_8-snap.1487-T1
Valid prediction for GlimmerHMM_glimmerT_20044-T1
Valid prediction for Augustus_model.g13335.t1
Valid prediction for GlimmerHMM_glimmerT_20053-T1
Valid prediction for Augustus_model.g13331.t1
Valid prediction for snap_scaffold_8-snap.1468-T1
Valid prediction for GlimmerHMM_glimmerT_20050-T1
Valid prediction for snap_scaffold_8-snap.1456-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 31913, rend_intergenic: 29326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33572, rend_intergenic: 32090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41003, rend_intergenic: 39812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44539, rend_intergenic: 41029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72968, rend_intergenic: 70604  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121572, rend_intergenic: 120397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202732, rend_intergenic: 199339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 224196
-exon list size: 253


building trellis

0.4    
0.8    
1.2    
1.6    
2.0    
2.4    
2.7    
3.1    
3.5    
3.9    
4.3    
4.7    
5.1    
5.5    
5.9    
6.3    
6.7    
7.1    
7.5    
7.8    
8.2    
8.6    
9.0    
9.4    
9.8    
10.2    
10.6    
11.0    
11.4    
11.8    
12.2    
12.5    
12.9    
13.3    
13.7    
14.1    
14.5    
14.9    
15.3    
15.7    
16.1    
16.5    
16.9    
17.3    
17.6    
18.0    
18.4    
18.8    
19.2    
19.6    
20.0    
20.4    
20.8    
21.2    
21.6    
22.0    
22.4    
22.7    
23.1    
23.5    
23.9    
24.3    
24.7    
25.1    
25.5    
25.9    
26.3    
26.7    
27.1    
27.5    
27.8    
28.2    
28.6    
29.0    
29.4    
29.8    
30.2    
30.6    
31.0    
31.4    
31.8    
32.2    
32.5    
32.9    
33.3    
33.7    
34.1    
34.5    
34.9    
35.3    
35.7    
36.1    
36.5    
36.9    
37.3    
37.6    
38.0    
38.4    
38.8    
39.2    
39.6    
40.0    
40.4    
40.8    
41.2    
41.6    
42.0    
42.4    
42.7    
43.1    
43.5    
43.9    
44.3    
44.7    
45.1    
45.5    
45.9    
46.3    
46.7    
47.1    
47.5    
47.8    
48.2    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.8    
52.2    
52.5    
52.9    
53.3    
53.7    
54.1    
54.5    
54.9    
55.3    
55.7    
56.1    
56.5    
56.9    
57.3    
57.6    
58.0    
58.4    
58.8    
59.2    
59.6    
60.0    
60.4    
60.8    
61.2    
61.6    
62.0    
62.4    
62.7    
63.1    
63.5    
63.9    
64.3    
64.7    
65.1    
65.5    
65.9    
66.3    
66.7    
67.1    
67.5    
67.8    
68.2    
68.6    
69.0    
69.4    
69.8    
70.2    
70.6    
71.0    
71.4    
71.8    
72.2    
72.5    
72.9    
73.3    
73.7    
74.1    
74.5    
74.9    
75.3    
75.7    
76.1    
76.5    
76.9    
77.3    
77.6    
78.0    
78.4    
78.8    
79.2    
79.6    
80.0    
80.4    
80.8    
81.2    
81.6    
82.0    
82.4    
82.7    
83.1    
83.5    
83.9    
84.3    
84.7    
85.1    
85.5    
85.9    
86.3    
86.7    
87.1    
87.5    
87.8    
88.2    
88.6    
89.0    
89.4    
89.8    
90.2    
90.6    
91.0    
91.4    
91.8    
92.2    
92.5    
92.9    
93.3    
93.7    
94.1    
94.5    
94.9    
95.3    
95.7    
96.1    
96.5    
96.9    
97.3    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 31913, rend_intergenic: 29326  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33572, rend_intergenic: 32090  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41003, rend_intergenic: 39812  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44539, rend_intergenic: 41029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72968, rend_intergenic: 70604  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121572, rend_intergenic: 120397  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202732, rend_intergenic: 199339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11889
-exon list size: 22


building trellis

4.2    
8.3    
12.5    
16.7    
20.8    
25.0    
29.2    
33.3    
37.5    
41.7    
45.8    
50.0    
54.2    
58.3    
62.5    
66.7    
70.8    
75.0    
79.2    
83.3    
87.5    
91.7    
95.8    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support