-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_2/scaffold_2_16938469-17071651

-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_2-snap.3299-T1
Valid prediction for snap_scaffold_2-snap.3271-T1
Valid prediction for snap_scaffold_2-snap.3269-T1
Valid prediction for snap_scaffold_2-snap.3270-T1
Valid prediction for GlimmerHMM_glimmerT_5319-T1
Valid prediction for GlimmerHMM_glimmerT_5313-T1
Valid prediction for snap_scaffold_2-snap.3277-T1
Valid prediction for Augustus_model.g3596.t1
Valid prediction for GlimmerHMM_glimmerT_5311-T1
Valid prediction for GlimmerHMM_glimmerT_5321-T1
Valid prediction for snap_scaffold_2-snap.3300-T1
Valid prediction for Augustus_model.g3587.t1
Valid prediction for Augustus_model.g3585.t1
Valid prediction for Augustus_model.g3584.t1
Valid prediction for snap_scaffold_2-snap.3294-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_2-snap.3301-T1
Valid prediction for snap_scaffold_2-snap.3280-T1
Valid prediction for Augustus_model.g3591.t1
Valid prediction for snap_scaffold_2-snap.3288-T1
Valid prediction for GlimmerHMM_glimmerT_5316-T1
Valid prediction for GlimmerHMM_glimmerT_5326-T1
Valid prediction for Augustus_model.g3590.t1
Valid prediction for snap_scaffold_2-snap.3275-T1
Valid prediction for Augustus_model.g3586.t1
Valid prediction for GlimmerHMM_glimmerT_5330-T1
Valid prediction for snap_scaffold_2-snap.3290-T1
Valid prediction for snap_scaffold_2-snap.3285-T1
Valid prediction for GlimmerHMM_glimmerT_5315-T1
Valid prediction for GlimmerHMM_glimmerT_5314-T1
Valid prediction for snap_scaffold_2-snap.3279-T1
Valid prediction for Augustus_model.g3589.t1
Valid prediction for snap_scaffold_2-snap.3276-T1
Valid prediction for GlimmerHMM_glimmerT_5312-T1
Valid prediction for snap_scaffold_2-snap.3282-T1
Valid prediction for Augustus_model.g3594.t1
Valid prediction for snap_scaffold_2-snap.3273-T1
Valid prediction for GlimmerHMM_glimmerT_5322-T1
Valid prediction for snap_scaffold_2-snap.3265-T1
Valid prediction for GlimmerHMM_glimmerT_5327-T1
Valid prediction for snap_scaffold_2-snap.3297-T1
Valid prediction for Augustus_model.g3588.t1
Valid prediction for snap_scaffold_2-snap.3287-T1
Valid prediction for snap_scaffold_2-snap.3264-T1
Valid prediction for GlimmerHMM_glimmerT_5331-T1
Valid prediction for GlimmerHMM_glimmerT_5317-T1
Valid prediction for GlimmerHMM_glimmerT_5328-T1
Valid prediction for snap_scaffold_2-snap.3291-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_2-snap.3289-T1
Valid prediction for GlimmerHMM_glimmerT_5329-T1
Valid prediction for GlimmerHMM_glimmerT_5324-T1
Valid prediction for snap_scaffold_2-snap.3281-T1
Valid prediction for HiQ_model.g3592.t1
Valid prediction for snap_scaffold_2-snap.3266-T1
Valid prediction for snap_scaffold_2-snap.3267-T1
Valid prediction for snap_scaffold_2-snap.3293-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_5318-T1
Valid prediction for snap_scaffold_2-snap.3292-T1
Valid prediction for snap_scaffold_2-snap.3268-T1
Valid prediction for Augustus_model.g3595.t1
Valid prediction for CodingQuarry_transcript_28805-T1
Valid prediction for CodingQuarry_transcript_28806-T1
Valid prediction for snap_scaffold_2-snap.3286-T1
Valid prediction for snap_scaffold_2-snap.3272-T1
Valid prediction for snap_scaffold_2-snap.3283-T1
Valid prediction for snap_scaffold_2-snap.3274-T1
Valid prediction for snap_scaffold_2-snap.3298-T1
Valid prediction for pasa_asmbl_23708.p1
Valid prediction for snap_scaffold_2-snap.3296-T1
Valid prediction for Augustus_model.g3593.t1
Valid prediction for GlimmerHMM_glimmerT_5320-T1
Valid prediction for snap_scaffold_2-snap.3278-T1
Valid prediction for GlimmerHMM_glimmerT_5323-T1
Valid prediction for GlimmerHMM_glimmerT_5325-T1
Valid prediction for snap_scaffold_2-snap.3284-T1
Valid prediction for snap_scaffold_2-snap.3295-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 24730, rend_intergenic: 19299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32684, rend_intergenic: 26508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38610, rend_intergenic: 33730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87836, rend_intergenic: 83948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89579, rend_intergenic: 88319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91806, rend_intergenic: 89703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97067, rend_intergenic: 91806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102637, rend_intergenic: 99372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105598, rend_intergenic: 103439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119940, rend_intergenic: 115063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122437, rend_intergenic: 120025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124808, rend_intergenic: 123325  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 133183
-exon list size: 223


building trellis

0.4    
0.9    
1.3    
1.8    
2.2    
2.7    
3.1    
3.6    
4.0    
4.4    
4.9    
5.3    
5.8    
6.2    
6.7    
7.1    
7.6    
8.0    
8.4    
8.9    
9.3    
9.8    
10.2    
10.7    
11.1    
11.6    
12.0    
12.4    
12.9    
13.3    
13.8    
14.2    
14.7    
15.1    
15.6    
16.0    
16.4    
16.9    
17.3    
17.8    
18.2    
18.7    
19.1    
19.6    
20.0    
20.4    
20.9    
21.3    
21.8    
22.2    
22.7    
23.1    
23.6    
24.0    
24.4    
24.9    
25.3    
25.8    
26.2    
26.7    
27.1    
27.6    
28.0    
28.4    
28.9    
29.3    
29.8    
30.2    
30.7    
31.1    
31.6    
32.0    
32.4    
32.9    
33.3    
33.8    
34.2    
34.7    
35.1    
35.6    
36.0    
36.4    
36.9    
37.3    
37.8    
38.2    
38.7    
39.1    
39.6    
40.0    
40.4    
40.9    
41.3    
41.8    
42.2    
42.7    
43.1    
43.6    
44.0    
44.4    
44.9    
45.3    
45.8    
46.2    
46.7    
47.1    
47.6    
48.0    
48.4    
48.9    
49.3    
49.8    
50.2    
50.7    
51.1    
51.6    
52.0    
52.4    
52.9    
53.3    
53.8    
54.2    
54.7    
55.1    
55.6    
56.0    
56.4    
56.9    
57.3    
57.8    
58.2    
58.7    
59.1    
59.6    
60.0    
60.4    
60.9    
61.3    
61.8    
62.2    
62.7    
63.1    
63.6    
64.0    
64.4    
64.9    
65.3    
65.8    
66.2    
66.7    
67.1    
67.6    
68.0    
68.4    
68.9    
69.3    
69.8    
70.2    
70.7    
71.1    
71.6    
72.0    
72.4    
72.9    
73.3    
73.8    
74.2    
74.7    
75.1    
75.6    
76.0    
76.4    
76.9    
77.3    
77.8    
78.2    
78.7    
79.1    
79.6    
80.0    
80.4    
80.9    
81.3    
81.8    
82.2    
82.7    
83.1    
83.6    
84.0    
84.4    
84.9    
85.3    
85.8    
86.2    
86.7    
87.1    
87.6    
88.0    
88.4    
88.9    
89.3    
89.8    
90.2    
90.7    
91.1    
91.6    
92.0    
92.4    
92.9    
93.3    
93.8    
94.2    
94.7    
95.1    
95.6    
96.0    
96.4    
96.9    
97.3    
97.8    
98.2    
98.7    
99.1    
99.6    
-found 20 predictions from path traversal
Error with prediction: snap lend_intergenic: 24730, rend_intergenic: 19299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32684, rend_intergenic: 26508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38610, rend_intergenic: 33730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87836, rend_intergenic: 83948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89579, rend_intergenic: 88319  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91806, rend_intergenic: 89703  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97067, rend_intergenic: 91806  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102637, rend_intergenic: 99372  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105598, rend_intergenic: 103439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119940, rend_intergenic: 115063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122437, rend_intergenic: 120025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124808, rend_intergenic: 123325  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 1 - 11318
-exon list size: 4


building trellis

16.7    
33.3    
50.0    
66.7    
83.3    
-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 1 - 10453
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
80.0    
-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 120171 - 133183
-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