-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_25/scaffold_25_3874071-4048963

-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 snap_scaffold_25-snap.802-T1
Valid prediction for snap_scaffold_25-snap.828-T1
Valid prediction for snap_scaffold_25-snap.805-T1
Valid prediction for Augustus_model.g35800.t1
Valid prediction for GlimmerHMM_glimmerT_53949-T1
Valid prediction for Augustus_model.g35799.t1
Valid prediction for Augustus_model.g35795.t1
Valid prediction for snap_scaffold_25-snap.817-T1
Valid prediction for snap_scaffold_25-snap.806-T1
Valid prediction for GlimmerHMM_glimmerT_53936-T1
Valid prediction for snap_scaffold_25-snap.807-T1
Valid prediction for snap_scaffold_25-snap.823-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_25-snap.804-T1
Couldn't classify 46390, 46513
Couldn't classify 46774, 46952
Sorry, prediction pasa_asmbl_33939.p1 fails validation.
(CTC)	 AC	46390-46513	GT	AGG
(CTG)	 AG	46774-46952	CA	AAC
Valid prediction for GlimmerHMM_glimmerT_53934-T1
Valid prediction for Augustus_model.g35794.t1
Valid prediction for snap_scaffold_25-snap.821-T1
Valid prediction for Augustus_model.g35791.t1
Valid prediction for snap_scaffold_25-snap.824-T1
Valid prediction for Augustus_model.g35792.t1
Valid prediction for snap_scaffold_25-snap.816-T1
Valid prediction for GlimmerHMM_glimmerT_53947-T1
Valid prediction for snap_scaffold_25-snap.822-T1
Valid prediction for GlimmerHMM_glimmerT_53944-T1
Valid prediction for snap_scaffold_25-snap.811-T1
Valid prediction for GlimmerHMM_glimmerT_53935-T1
Valid prediction for GlimmerHMM_glimmerT_53937-T1
Valid prediction for Augustus_model.g35793.t1
Valid prediction for Augustus_model.g35802.t1
Valid prediction for GlimmerHMM_glimmerT_53943-T1
Valid prediction for GlimmerHMM_glimmerT_53941-T1
Valid prediction for snap_scaffold_25-snap.813-T1
Valid prediction for GlimmerHMM_glimmerT_53938-T1
Valid prediction for snap_scaffold_25-snap.808-T1
Valid prediction for snap_scaffold_25-snap.800-T1
Valid prediction for Augustus_model.g35798.t1
Valid prediction for snap_scaffold_25-snap.815-T1
Valid prediction for GlimmerHMM_glimmerT_53948-T1
Valid prediction for snap_scaffold_25-snap.798-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_53932-T1
Valid prediction for GlimmerHMM_glimmerT_53939-T1
Valid prediction for snap_scaffold_25-snap.809-T1
Valid prediction for snap_scaffold_25-snap.826-T1
Valid prediction for snap_scaffold_25-snap.819-T1
Valid prediction for GlimmerHMM_glimmerT_53946-T1
Couldn't classify 1558, 1695
Couldn't classify 4821, 4970
Sorry, prediction pasa_asmbl_33468.p1 fails validation.
(CCA)	 GT	1558-1695	GT	TGG
(TTT)	 AG	2238-2417	GT	AGG
(ATT)	 AG	3683-3964	GT	TGG
(TGC)	 AG	4821-4970	GA	GTG
-recovered pasa_asmbl_33468.p1, internal, 2238, 2417
-recovered pasa_asmbl_33468.p1, internal, 3683, 3964
Valid prediction for GlimmerHMM_glimmerT_53942-T1
Valid prediction for snap_scaffold_25-snap.818-T1
Valid prediction for Augustus_model.g35797.t1
Valid prediction for GlimmerHMM_glimmerT_53931-T1
Valid prediction for Augustus_model.g35796.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_53933-T1
Valid prediction for snap_scaffold_25-snap.810-T1
Valid prediction for snap_scaffold_25-snap.803-T1
Valid prediction for GlimmerHMM_glimmerT_53952-T1
Valid prediction for snap_scaffold_25-snap.827-T1
Valid prediction for GlimmerHMM_glimmerT_53940-T1
Valid prediction for snap_scaffold_25-snap.799-T1
Valid prediction for snap_scaffold_25-snap.825-T1
Valid prediction for Augustus_model.g35803.t1
Valid prediction for GlimmerHMM_glimmerT_53945-T1
Valid prediction for snap_scaffold_25-snap.801-T1
Valid prediction for snap_scaffold_25-snap.812-T1
Valid prediction for Augustus_model.g35801.t1
Valid prediction for snap_scaffold_25-snap.814-T1
Valid prediction for GlimmerHMM_glimmerT_53951-T1
Valid prediction for GlimmerHMM_glimmerT_53950-T1
Valid prediction for snap_scaffold_25-snap.820-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 136016, rend_intergenic: 134983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163694, rend_intergenic: 157174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 174893
-exon list size: 177


building trellis

0.6    
1.1    
1.7    
2.2    
2.8    
3.4    
3.9    
4.5    
5.0    
5.6    
6.1    
6.7    
7.3    
7.8    
8.4    
8.9    
9.5    
10.1    
10.6    
11.2    
11.7    
12.3    
12.8    
13.4    
14.0    
14.5    
15.1    
15.6    
16.2    
16.8    
17.3    
17.9    
18.4    
19.0    
19.6    
20.1    
20.7    
21.2    
21.8    
22.3    
22.9    
23.5    
24.0    
24.6    
25.1    
25.7    
26.3    
26.8    
27.4    
27.9    
28.5    
29.1    
29.6    
30.2    
30.7    
31.3    
31.8    
32.4    
33.0    
33.5    
34.1    
34.6    
35.2    
35.8    
36.3    
36.9    
37.4    
38.0    
38.5    
39.1    
39.7    
40.2    
40.8    
41.3    
41.9    
42.5    
43.0    
43.6    
44.1    
44.7    
45.3    
45.8    
46.4    
46.9    
47.5    
48.0    
48.6    
49.2    
49.7    
50.3    
50.8    
51.4    
52.0    
52.5    
53.1    
53.6    
54.2    
54.7    
55.3    
55.9    
56.4    
57.0    
57.5    
58.1    
58.7    
59.2    
59.8    
60.3    
60.9    
61.5    
62.0    
62.6    
63.1    
63.7    
64.2    
64.8    
65.4    
65.9    
66.5    
67.0    
67.6    
68.2    
68.7    
69.3    
69.8    
70.4    
70.9    
71.5    
72.1    
72.6    
73.2    
73.7    
74.3    
74.9    
75.4    
76.0    
76.5    
77.1    
77.7    
78.2    
78.8    
79.3    
79.9    
80.4    
81.0    
81.6    
82.1    
82.7    
83.2    
83.8    
84.4    
84.9    
85.5    
86.0    
86.6    
87.2    
87.7    
88.3    
88.8    
89.4    
89.9    
90.5    
91.1    
91.6    
92.2    
92.7    
93.3    
93.9    
94.4    
95.0    
95.5    
96.1    
96.6    
97.2    
97.8    
98.3    
98.9    
99.4    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 136016, rend_intergenic: 134983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163694, rend_intergenic: 157174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 155434 - 174893
-exon list size: 12


building trellis

7.1    
14.3    
21.4    
28.6    
35.7    
42.9    
50.0    
57.1    
64.3    
71.4    
78.6    
85.7    
92.9    
-found 1 predictions from path traversal

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

-building DP trellis

-building trellis in range 156249 - 174893
-exon list size: 11


building trellis

7.7    
15.4    
23.1    
30.8    
38.5    
46.2    
53.8    
61.5    
69.2    
76.9    
84.6    
92.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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

-building DP trellis

-building trellis in range 160877 - 174893
-exon list size: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-found 1 predictions from path traversal

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