-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_720501-936099

-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_12-snap.200-T1
Valid prediction for snap_scaffold_12-snap.184-T1
Valid prediction for GlimmerHMM_glimmerT_28752-T1
Valid prediction for GlimmerHMM_glimmerT_28769-T1
Valid prediction for snap_scaffold_12-snap.205-T1
Valid prediction for snap_scaffold_12-snap.197-T1
Valid prediction for snap_scaffold_12-snap.178-T1
Valid prediction for snap_scaffold_12-snap.193-T1
Valid prediction for Augustus_model.g19020.t1
Valid prediction for snap_scaffold_12-snap.204-T1
Valid prediction for snap_scaffold_12-snap.212-T1
Valid prediction for GlimmerHMM_glimmerT_28759-T1
Valid prediction for snap_scaffold_12-snap.191-T1
Valid prediction for snap_scaffold_12-snap.175-T1
Valid prediction for snap_scaffold_12-snap.203-T1
Valid prediction for snap_scaffold_12-snap.213-T1
Valid prediction for snap_scaffold_12-snap.172-T1
Valid prediction for snap_scaffold_12-snap.214-T1
Valid prediction for snap_scaffold_12-snap.177-T1
Valid prediction for GlimmerHMM_glimmerT_28768-T1
Valid prediction for snap_scaffold_12-snap.190-T1
Valid prediction for snap_scaffold_12-snap.181-T1
Valid prediction for snap_scaffold_12-snap.170-T1
Valid prediction for snap_scaffold_12-snap.218-T1
Valid prediction for GlimmerHMM_glimmerT_28754-T1
Valid prediction for snap_scaffold_12-snap.215-T1
Valid prediction for GlimmerHMM_glimmerT_28756-T1
Valid prediction for snap_scaffold_12-snap.207-T1
Valid prediction for snap_scaffold_12-snap.183-T1
Valid prediction for snap_scaffold_12-snap.180-T1
Valid prediction for GlimmerHMM_glimmerT_28770-T1
Valid prediction for snap_scaffold_12-snap.187-T1
Valid prediction for snap_scaffold_12-snap.196-T1
Valid prediction for GlimmerHMM_glimmerT_28757-T1
Valid prediction for GlimmerHMM_glimmerT_28765-T1
Valid prediction for snap_scaffold_12-snap.216-T1
Valid prediction for snap_scaffold_12-snap.188-T1
Valid prediction for snap_scaffold_12-snap.179-T1
Valid prediction for snap_scaffold_12-snap.186-T1
Valid prediction for GlimmerHMM_glimmerT_28760-T1
Valid prediction for Augustus_model.g19017.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_12-snap.201-T1
Valid prediction for snap_scaffold_12-snap.206-T1
Valid prediction for GlimmerHMM_glimmerT_28766-T1
Valid prediction for snap_scaffold_12-snap.211-T1
Valid prediction for snap_scaffold_12-snap.174-T1
Valid prediction for GlimmerHMM_glimmerT_28762-T1
Valid prediction for snap_scaffold_12-snap.208-T1
Valid prediction for Augustus_model.g19019.t1
Valid prediction for snap_scaffold_12-snap.198-T1
Valid prediction for snap_scaffold_12-snap.169-T1
Valid prediction for GlimmerHMM_glimmerT_28771-T1
Valid prediction for GlimmerHMM_glimmerT_28761-T1
Valid prediction for snap_scaffold_12-snap.217-T1
Couldn't classify 208494, 208964
Couldn't classify 210876, 211142
Sorry, prediction pasa_asmbl_9165.p1 fails validation.
(AAG)	 TC	208494-208964	GT	AGG
(GTA)	 AG	210876-211142	GG	GAG
Valid prediction for snap_scaffold_12-snap.195-T1
Valid prediction for snap_scaffold_12-snap.209-T1
Valid prediction for snap_scaffold_12-snap.171-T1
Valid prediction for snap_scaffold_12-snap.199-T1
Valid prediction for snap_scaffold_12-snap.173-T1
Valid prediction for Augustus_model.g19016.t1
Valid prediction for snap_scaffold_12-snap.182-T1
Valid prediction for GlimmerHMM_glimmerT_28753-T1
Valid prediction for GlimmerHMM_glimmerT_28763-T1
Valid prediction for HiQ_model.g19015.t1
Valid prediction for snap_scaffold_12-snap.202-T1
Valid prediction for GlimmerHMM_glimmerT_28775-T1
Valid prediction for snap_scaffold_12-snap.189-T1
Valid prediction for snap_scaffold_12-snap.192-T1
Valid prediction for snap_scaffold_12-snap.176-T1
Valid prediction for snap_scaffold_12-snap.185-T1
Valid prediction for GlimmerHMM_glimmerT_28764-T1
Valid prediction for GlimmerHMM_glimmerT_28774-T1
Valid prediction for GlimmerHMM_glimmerT_28772-T1
Valid prediction for GlimmerHMM_glimmerT_28773-T1
Valid prediction for snap_scaffold_12-snap.194-T1
Valid prediction for snap_scaffold_12-snap.210-T1
Valid prediction for Augustus_model.g19018.t1
Valid prediction for GlimmerHMM_glimmerT_28755-T1
Valid prediction for GlimmerHMM_glimmerT_28758-T1
Valid prediction for GlimmerHMM_glimmerT_28767-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7436, rend_intergenic: 6116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14821, rend_intergenic: 8171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34414, rend_intergenic: 24952  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57605, rend_intergenic: 42260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71602, rend_intergenic: 70208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77608, rend_intergenic: 72341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78955, rend_intergenic: 78410  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86881, rend_intergenic: 85356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90193, rend_intergenic: 87190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95776, rend_intergenic: 93445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120316, rend_intergenic: 118094  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129975, rend_intergenic: 124430  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138538, rend_intergenic: 133131  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166043, rend_intergenic: 159832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211131, rend_intergenic: 207356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 215599
-exon list size: 267


building trellis

0.4    
0.7    
1.1    
1.5    
1.9    
2.2    
2.6    
3.0    
3.3    
3.7    
4.1    
4.5    
4.8    
5.2    
5.6    
5.9    
6.3    
6.7    
7.1    
7.4    
7.8    
8.2    
8.6    
8.9    
9.3    
9.7    
10.0    
10.4    
10.8    
11.2    
11.5    
11.9    
12.3    
12.6    
13.0    
13.4    
13.8    
14.1    
14.5    
14.9    
15.2    
15.6    
16.0    
16.4    
16.7    
17.1    
17.5    
17.8    
18.2    
18.6    
19.0    
19.3    
19.7    
20.1    
20.4    
20.8    
21.2    
21.6    
21.9    
22.3    
22.7    
23.0    
23.4    
23.8    
24.2    
24.5    
24.9    
25.3    
25.7    
26.0    
26.4    
26.8    
27.1    
27.5    
27.9    
28.3    
28.6    
29.0    
29.4    
29.7    
30.1    
30.5    
30.9    
31.2    
31.6    
32.0    
32.3    
32.7    
33.1    
33.5    
33.8    
34.2    
34.6    
34.9    
35.3    
35.7    
36.1    
36.4    
36.8    
37.2    
37.5    
37.9    
38.3    
38.7    
39.0    
39.4    
39.8    
40.1    
40.5    
40.9    
41.3    
41.6    
42.0    
42.4    
42.8    
43.1    
43.5    
43.9    
44.2    
44.6    
45.0    
45.4    
45.7    
46.1    
46.5    
46.8    
47.2    
47.6    
48.0    
48.3    
48.7    
49.1    
49.4    
49.8    
50.2    
50.6    
50.9    
51.3    
51.7    
52.0    
52.4    
52.8    
53.2    
53.5    
53.9    
54.3    
54.6    
55.0    
55.4    
55.8    
56.1    
56.5    
56.9    
57.2    
57.6    
58.0    
58.4    
58.7    
59.1    
59.5    
59.9    
60.2    
60.6    
61.0    
61.3    
61.7    
62.1    
62.5    
62.8    
63.2    
63.6    
63.9    
64.3    
64.7    
65.1    
65.4    
65.8    
66.2    
66.5    
66.9    
67.3    
67.7    
68.0    
68.4    
68.8    
69.1    
69.5    
69.9    
70.3    
70.6    
71.0    
71.4    
71.7    
72.1    
72.5    
72.9    
73.2    
73.6    
74.0    
74.3    
74.7    
75.1    
75.5    
75.8    
76.2    
76.6    
77.0    
77.3    
77.7    
78.1    
78.4    
78.8    
79.2    
79.6    
79.9    
80.3    
80.7    
81.0    
81.4    
81.8    
82.2    
82.5    
82.9    
83.3    
83.6    
84.0    
84.4    
84.8    
85.1    
85.5    
85.9    
86.2    
86.6    
87.0    
87.4    
87.7    
88.1    
88.5    
88.8    
89.2    
89.6    
90.0    
90.3    
90.7    
91.1    
91.4    
91.8    
92.2    
92.6    
92.9    
93.3    
93.7    
94.1    
94.4    
94.8    
95.2    
95.5    
95.9    
96.3    
96.7    
97.0    
97.4    
97.8    
98.1    
98.5    
98.9    
99.3    
99.6    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 7436, rend_intergenic: 6116  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14821, rend_intergenic: 8171  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34414, rend_intergenic: 24952  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57605, rend_intergenic: 42260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71602, rend_intergenic: 70208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77608, rend_intergenic: 72341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78955, rend_intergenic: 78410  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86881, rend_intergenic: 85356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90193, rend_intergenic: 87190  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95776, rend_intergenic: 93445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120316, rend_intergenic: 118094  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129975, rend_intergenic: 124430  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138538, rend_intergenic: 133131  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166043, rend_intergenic: 159832  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211131, rend_intergenic: 207356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 190152 - 215599
-exon list size: 21


building trellis

4.3    
8.7    
13.0    
17.4    
21.7    
26.1    
30.4    
34.8    
39.1    
43.5    
47.8    
52.2    
56.5    
60.9    
65.2    
69.6    
73.9    
78.3    
82.6    
87.0    
91.3    
95.7    
-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 190320 - 215599
-exon list size: 20


building trellis

4.5    
9.1    
13.6    
18.2    
22.7    
27.3    
31.8    
36.4    
40.9    
45.5    
50.0    
54.5    
59.1    
63.6    
68.2    
72.7    
77.3    
81.8    
86.4    
90.9    
95.5    
-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 190320 - 204921
-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

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

-building DP trellis

-building trellis in range 204933 - 215599
-exon list size: 8


building trellis

10.0    
20.0    
30.0    
40.0    
50.0    
60.0    
70.0    
80.0    
90.0    
-found 1 predictions from path traversal

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