-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_12621178-12828596

-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_28070-T1
Valid prediction for GlimmerHMM_glimmerT_28069-T1
Valid prediction for GlimmerHMM_glimmerT_28068-T1
Valid prediction for snap_scaffold_11-snap.2714-T1
Valid prediction for Augustus_model.g18592.t1
Valid prediction for snap_scaffold_11-snap.2720-T1
Valid prediction for GlimmerHMM_glimmerT_28082-T1
Valid prediction for snap_scaffold_11-snap.2706-T1
Valid prediction for Augustus_model.g18600.t1
Valid prediction for GlimmerHMM_glimmerT_28087-T1
Valid prediction for GlimmerHMM_glimmerT_28092-T1
Valid prediction for GlimmerHMM_glimmerT_28084-T1
Valid prediction for snap_scaffold_11-snap.2718-T1
Valid prediction for GlimmerHMM_glimmerT_28089-T1
Valid prediction for snap_scaffold_11-snap.2722-T1
Valid prediction for GlimmerHMM_glimmerT_28088-T1
Valid prediction for GlimmerHMM_glimmerT_28071-T1
Valid prediction for snap_scaffold_11-snap.2694-T1
Valid prediction for snap_scaffold_11-snap.2692-T1
Valid prediction for snap_scaffold_11-snap.2708-T1
Valid prediction for GlimmerHMM_glimmerT_28072-T1
Valid prediction for GlimmerHMM_glimmerT_28078-T1
Valid prediction for snap_scaffold_11-snap.2699-T1
Valid prediction for Augustus_model.g18596.t1
Valid prediction for snap_scaffold_11-snap.2709-T1
Valid prediction for snap_scaffold_11-snap.2711-T1
Valid prediction for snap_scaffold_11-snap.2723-T1
Valid prediction for snap_scaffold_11-snap.2697-T1
Valid prediction for snap_scaffold_11-snap.2713-T1
Valid prediction for snap_scaffold_11-snap.2717-T1
Valid prediction for GlimmerHMM_glimmerT_28083-T1
Valid prediction for GlimmerHMM_glimmerT_28090-T1
Valid prediction for snap_scaffold_11-snap.2701-T1
Valid prediction for GlimmerHMM_glimmerT_28081-T1
Valid prediction for Augustus_model.g18593.t1
Valid prediction for GlimmerHMM_glimmerT_28067-T1
Valid prediction for snap_scaffold_11-snap.2703-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 CodingQuarry_transcript_8272-T1
Valid prediction for GlimmerHMM_glimmerT_28076-T1
Valid prediction for snap_scaffold_11-snap.2705-T1
Valid prediction for Augustus_model.g18598.t1
Valid prediction for snap_scaffold_11-snap.2704-T1
Couldn't classify 154146, 154448
Sorry, prediction pasa_asmbl_7094.p1 fails validation.
(CTA)	 CT	154146-154448	TA	AGT
Valid prediction for snap_scaffold_11-snap.2710-T1
Valid prediction for GlimmerHMM_glimmerT_28079-T1
Valid prediction for Augustus_model.g18602.t1
Valid prediction for snap_scaffold_11-snap.2724-T1
Valid prediction for GlimmerHMM_glimmerT_28077-T1
Valid prediction for snap_scaffold_11-snap.2702-T1
Valid prediction for snap_scaffold_11-snap.2707-T1
Valid prediction for snap_scaffold_11-snap.2721-T1
Valid prediction for GlimmerHMM_glimmerT_28085-T1
Valid prediction for snap_scaffold_11-snap.2696-T1
Valid prediction for Augustus_model.g18601.t1
Valid prediction for snap_scaffold_11-snap.2700-T1
Valid prediction for GlimmerHMM_glimmerT_28075-T1
Valid prediction for Augustus_model.g18597.t1
Valid prediction for snap_scaffold_11-snap.2698-T1
Valid prediction for snap_scaffold_11-snap.2712-T1
Valid prediction for GlimmerHMM_glimmerT_28080-T1
Valid prediction for GlimmerHMM_glimmerT_28073-T1
Valid prediction for snap_scaffold_11-snap.2716-T1
Valid prediction for snap_scaffold_11-snap.2719-T1
Valid prediction for snap_scaffold_11-snap.2690-T1
Valid prediction for GlimmerHMM_glimmerT_28074-T1
Valid prediction for Augustus_model.g18594.t1
Valid prediction for Augustus_model.g18599.t1
Valid prediction for snap_scaffold_11-snap.2695-T1
Valid prediction for snap_scaffold_11-snap.2715-T1
Valid prediction for snap_scaffold_11-snap.2691-T1
Valid prediction for snap_scaffold_11-snap.2693-T1
Valid prediction for GlimmerHMM_glimmerT_28091-T1
Valid prediction for Augustus_model.g18595.t1
Valid prediction for GlimmerHMM_glimmerT_28086-T1
Valid prediction for CodingQuarry_transcript_8273-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 35695, rend_intergenic: 27589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37490, rend_intergenic: 36834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41053, rend_intergenic: 39022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58186, rend_intergenic: 54196  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64835, rend_intergenic: 59192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73191, rend_intergenic: 66991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85013, rend_intergenic: 78844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91341, rend_intergenic: 85811  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101131, rend_intergenic: 93521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105355, rend_intergenic: 102569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107309, rend_intergenic: 106113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114507, rend_intergenic: 107411  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130849, rend_intergenic: 120795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157192, rend_intergenic: 155390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 207419
-exon list size: 259


building trellis

0.4    
0.8    
1.1    
1.5    
1.9    
2.3    
2.7    
3.1    
3.4    
3.8    
4.2    
4.6    
5.0    
5.4    
5.7    
6.1    
6.5    
6.9    
7.3    
7.7    
8.0    
8.4    
8.8    
9.2    
9.6    
10.0    
10.3    
10.7    
11.1    
11.5    
11.9    
12.3    
12.6    
13.0    
13.4    
13.8    
14.2    
14.6    
14.9    
15.3    
15.7    
16.1    
16.5    
16.9    
17.2    
17.6    
18.0    
18.4    
18.8    
19.2    
19.5    
19.9    
20.3    
20.7    
21.1    
21.5    
21.8    
22.2    
22.6    
23.0    
23.4    
23.8    
24.1    
24.5    
24.9    
25.3    
25.7    
26.1    
26.4    
26.8    
27.2    
27.6    
28.0    
28.4    
28.7    
29.1    
29.5    
29.9    
30.3    
30.7    
31.0    
31.4    
31.8    
32.2    
32.6    
33.0    
33.3    
33.7    
34.1    
34.5    
34.9    
35.2    
35.6    
36.0    
36.4    
36.8    
37.2    
37.5    
37.9    
38.3    
38.7    
39.1    
39.5    
39.8    
40.2    
40.6    
41.0    
41.4    
41.8    
42.1    
42.5    
42.9    
43.3    
43.7    
44.1    
44.4    
44.8    
45.2    
45.6    
46.0    
46.4    
46.7    
47.1    
47.5    
47.9    
48.3    
48.7    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.3    
51.7    
52.1    
52.5    
52.9    
53.3    
53.6    
54.0    
54.4    
54.8    
55.2    
55.6    
55.9    
56.3    
56.7    
57.1    
57.5    
57.9    
58.2    
58.6    
59.0    
59.4    
59.8    
60.2    
60.5    
60.9    
61.3    
61.7    
62.1    
62.5    
62.8    
63.2    
63.6    
64.0    
64.4    
64.8    
65.1    
65.5    
65.9    
66.3    
66.7    
67.0    
67.4    
67.8    
68.2    
68.6    
69.0    
69.3    
69.7    
70.1    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.8    
73.2    
73.6    
73.9    
74.3    
74.7    
75.1    
75.5    
75.9    
76.2    
76.6    
77.0    
77.4    
77.8    
78.2    
78.5    
78.9    
79.3    
79.7    
80.1    
80.5    
80.8    
81.2    
81.6    
82.0    
82.4    
82.8    
83.1    
83.5    
83.9    
84.3    
84.7    
85.1    
85.4    
85.8    
86.2    
86.6    
87.0    
87.4    
87.7    
88.1    
88.5    
88.9    
89.3    
89.7    
90.0    
90.4    
90.8    
91.2    
91.6    
92.0    
92.3    
92.7    
93.1    
93.5    
93.9    
94.3    
94.6    
95.0    
95.4    
95.8    
96.2    
96.6    
96.9    
97.3    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 25 predictions from path traversal
Error with prediction: snap lend_intergenic: 35695, rend_intergenic: 27589  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37490, rend_intergenic: 36834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41053, rend_intergenic: 39022  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58186, rend_intergenic: 54196  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64835, rend_intergenic: 59192  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73191, rend_intergenic: 66991  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85013, rend_intergenic: 78844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91341, rend_intergenic: 85811  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101131, rend_intergenic: 93521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105355, rend_intergenic: 102569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107309, rend_intergenic: 106113  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114507, rend_intergenic: 107411  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130849, rend_intergenic: 120795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157192, rend_intergenic: 155390  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 10 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 161265 - 207419
-exon list size: 16


building trellis

5.6    
11.1    
16.7    
22.2    
27.8    
33.3    
38.9    
44.4    
50.0    
55.6    
61.1    
66.7    
72.2    
77.8    
83.3    
88.9    
94.4    
-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 161265 - 195182
-exon list size: 15


building trellis

5.9    
11.8    
17.6    
23.5    
29.4    
35.3    
41.2    
47.1    
52.9    
58.8    
64.7    
70.6    
76.5    
82.4    
88.2    
94.1    
-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 161265 - 194109
-exon list size: 13


building trellis

6.7    
13.3    
20.0    
26.7    
33.3    
40.0    
46.7    
53.3    
60.0    
66.7    
73.3    
80.0    
86.7    
93.3    
-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 165881 - 194109
-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
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 171113 - 194109
-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 171113 - 186341
-exon list size: 5


building trellis

14.3    
28.6    
42.9    
57.1    
71.4    
85.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support
	-no exons in range 195209 - 207419