-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_17133482-17260375

-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 GeneMark_model.32495_t
Valid prediction for GeneMark_model.32498_t
Valid prediction for GeneMark_model.32530_t
Valid prediction for GlimmerHMM_glimmerT_19238-T1
Valid prediction for snap_scaffold_7-snap.3291-T1
Valid prediction for snap_scaffold_7-snap.3300-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 101389, 102330
Sorry, prediction pasa_asmbl_51360.p1 fails validation.
(GAC)	 CA	101389-102330	TA	GAT
Valid prediction for GlimmerHMM_glimmerT_19234-T1
Valid prediction for GeneMark_model.32528_t
Valid prediction for GeneMark_model.32506_t
Valid prediction for GlimmerHMM_glimmerT_19231-T1
Valid prediction for GeneMark_model.32521_t
Valid prediction for snap_scaffold_7-snap.3309-T1
Valid prediction for GeneMark_model.32517_t
Valid prediction for snap_scaffold_7-snap.3301-T1
Valid prediction for Augustus_model.g12991.t1
Valid prediction for GeneMark_model.32524_t
Valid prediction for GlimmerHMM_glimmerT_19227-T1
Valid prediction for GeneMark_model.32526_t
Valid prediction for GeneMark_model.32511_t
Valid prediction for GeneMark_model.32493_t
Valid prediction for GlimmerHMM_glimmerT_19235-T1
Valid prediction for snap_scaffold_7-snap.3305-T1
Valid prediction for snap_scaffold_7-snap.3307-T1
Valid prediction for GeneMark_model.32496_t
Valid prediction for GeneMark_model.32499_t
Valid prediction for GeneMark_model.32515_t
Valid prediction for GeneMark_model.32532_t
Valid prediction for snap_scaffold_7-snap.3299-T1
Valid prediction for snap_scaffold_7-snap.3298-T1
Valid prediction for GlimmerHMM_glimmerT_19236-T1
Valid prediction for GeneMark_model.32518_t
Valid prediction for snap_scaffold_7-snap.3308-T1
Valid prediction for GlimmerHMM_glimmerT_19226-T1
Valid prediction for snap_scaffold_7-snap.3286-T1
Valid prediction for GeneMark_model.32512_t
Valid prediction for GlimmerHMM_glimmerT_19230-T1
Valid prediction for GeneMark_model.32505_t
Valid prediction for GeneMark_model.32500_t
Valid prediction for GeneMark_model.32522_t
Valid prediction for snap_scaffold_7-snap.3294-T1
Valid prediction for snap_scaffold_7-snap.3312-T1
Valid prediction for snap_scaffold_7-snap.3296-T1
Couldn't classify 4007, 4063
Couldn't classify 4865, 4949
Sorry, prediction pasa_asmbl_51359.p1 fails validation.
(AAA)	 TA	4007-4063	GT	AGG
(GAA)	 AG	4216-4326	GT	AGG
(GCG)	 AG	4535-4749	GT	AGG
(GAT)	 AG	4865-4949	AG	GAA
-recovered pasa_asmbl_51359.p1, internal, 4216, 4326
-recovered pasa_asmbl_51359.p1, internal, 4535, 4749
Valid prediction for GlimmerHMM_glimmerT_19240-T1
Valid prediction for snap_scaffold_7-snap.3292-T1
Valid prediction for snap_scaffold_7-snap.3288-T1
Valid prediction for snap_scaffold_7-snap.3306-T1
Valid prediction for GeneMark_model.32509_t
Valid prediction for GeneMark_model.32520_t
Valid prediction for GlimmerHMM_glimmerT_19229-T1
Valid prediction for GeneMark_model.32514_t
Valid prediction for GeneMark_model.32503_t
Valid prediction for snap_scaffold_7-snap.3303-T1
Valid prediction for Augustus_model.g12992.t1
Valid prediction for snap_scaffold_7-snap.3289-T1
Valid prediction for GlimmerHMM_glimmerT_19237-T1
Valid prediction for GlimmerHMM_glimmerT_19228-T1
Valid prediction for Augustus_model.g12993.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_7-snap.3295-T1
Valid prediction for Augustus_model.g12994.t1
Valid prediction for GeneMark_model.32529_t
Valid prediction for GeneMark_model.32525_t
Valid prediction for GeneMark_model.32523_t
Valid prediction for GeneMark_model.32531_t
Valid prediction for GeneMark_model.32510_t
Valid prediction for snap_scaffold_7-snap.3304-T1
Valid prediction for GlimmerHMM_glimmerT_19232-T1
Valid prediction for GlimmerHMM_glimmerT_19239-T1
Valid prediction for snap_scaffold_7-snap.3290-T1
Valid prediction for GeneMark_model.32494_t
Valid prediction for snap_scaffold_7-snap.3297-T1
Valid prediction for GeneMark_model.32508_t
Valid prediction for GeneMark_model.32501_t
Valid prediction for GeneMark_model.32527_t
Valid prediction for snap_scaffold_7-snap.3302-T1
Valid prediction for GeneMark_model.32497_t
Valid prediction for GlimmerHMM_glimmerT_19233-T1
Valid prediction for snap_scaffold_7-snap.3311-T1
Valid prediction for GlimmerHMM_glimmerT_19241-T1
Valid prediction for snap_scaffold_7-snap.3287-T1
Valid prediction for GeneMark_model.32516_t
Valid prediction for snap_scaffold_7-snap.3310-T1
Valid prediction for snap_scaffold_7-snap.3313-T1
Valid prediction for GeneMark_model.32502_t
Valid prediction for GeneMark_model.32519_t
Valid prediction for GeneMark_model.32504_t
Valid prediction for GeneMark_model.32513_t
Valid prediction for snap_scaffold_7-snap.3293-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5388, rend_intergenic: 4508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10565, rend_intergenic: 7051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16280, rend_intergenic: 10726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33975, rend_intergenic: 30798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37974, rend_intergenic: 34948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38750, rend_intergenic: 38364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63169, rend_intergenic: 43188  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92041, rend_intergenic: 78623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109839, rend_intergenic: 107417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117703, rend_intergenic: 114406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 33702, rend_intergenic: 33699  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 126894
-exon list size: 449


building trellis

0.2    
0.4    
0.7    
0.9    
1.1    
1.3    
1.6    
1.8    
2.0    
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2.4    
2.7    
2.9    
3.1    
3.3    
3.5    
3.8    
4.0    
4.2    
4.4    
4.7    
4.9    
5.1    
5.3    
5.5    
5.8    
6.0    
6.2    
6.4    
6.7    
6.9    
7.1    
7.3    
7.5    
7.8    
8.0    
8.2    
8.4    
8.6    
8.9    
9.1    
9.3    
9.5    
9.8    
10.0    
10.2    
10.4    
10.6    
10.9    
11.1    
11.3    
11.5    
11.8    
12.0    
12.2    
12.4    
12.6    
12.9    
13.1    
13.3    
13.5    
13.7    
14.0    
14.2    
14.4    
14.6    
14.9    
15.1    
15.3    
15.5    
15.7    
16.0    
16.2    
16.4    
16.6    
16.9    
17.1    
17.3    
17.5    
17.7    
18.0    
18.2    
18.4    
18.6    
18.8    
19.1    
19.3    
19.5    
19.7    
20.0    
20.2    
20.4    
20.6    
20.8    
21.1    
21.3    
21.5    
21.7    
22.0    
22.2    
22.4    
22.6    
22.8    
23.1    
23.3    
23.5    
23.7    
23.9    
24.2    
24.4    
24.6    
24.8    
25.1    
25.3    
25.5    
25.7    
25.9    
26.2    
26.4    
26.6    
26.8    
27.1    
27.3    
27.5    
27.7    
27.9    
28.2    
28.4    
28.6    
28.8    
29.0    
29.3    
29.5    
29.7    
29.9    
30.2    
30.4    
30.6    
30.8    
31.0    
31.3    
31.5    
31.7    
31.9    
32.2    
32.4    
32.6    
32.8    
33.0    
33.3    
33.5    
33.7    
33.9    
34.1    
34.4    
34.6    
34.8    
35.0    
35.3    
35.5    
35.7    
35.9    
36.1    
36.4    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
37.9    
38.1    
38.4    
38.6    
38.8    
39.0    
39.2    
39.5    
39.7    
39.9    
40.1    
40.4    
40.6    
40.8    
41.0    
41.2    
41.5    
41.7    
41.9    
42.1    
42.4    
42.6    
42.8    
43.0    
43.2    
43.5    
43.7    
43.9    
44.1    
44.3    
44.6    
44.8    
45.0    
45.2    
45.5    
45.7    
45.9    
46.1    
46.3    
46.6    
46.8    
47.0    
47.2    
47.5    
47.7    
47.9    
48.1    
48.3    
48.6    
48.8    
49.0    
49.2    
49.4    
49.7    
49.9    
50.1    
50.3    
50.6    
50.8    
51.0    
51.2    
51.4    
51.7    
51.9    
52.1    
52.3    
52.5    
52.8    
53.0    
53.2    
53.4    
53.7    
53.9    
54.1    
54.3    
54.5    
54.8    
55.0    
55.2    
55.4    
55.7    
55.9    
56.1    
56.3    
56.5    
56.8    
57.0    
57.2    
57.4    
57.6    
57.9    
58.1    
58.3    
58.5    
58.8    
59.0    
59.2    
59.4    
59.6    
59.9    
60.1    
60.3    
60.5    
60.8    
61.0    
61.2    
61.4    
61.6    
61.9    
62.1    
62.3    
62.5    
62.7    
63.0    
63.2    
63.4    
63.6    
63.9    
64.1    
64.3    
64.5    
64.7    
65.0    
65.2    
65.4    
65.6    
65.9    
66.1    
66.3    
66.5    
66.7    
67.0    
67.2    
67.4    
67.6    
67.8    
68.1    
68.3    
68.5    
68.7    
69.0    
69.2    
69.4    
69.6    
69.8    
70.1    
70.3    
70.5    
70.7    
71.0    
71.2    
71.4    
71.6    
71.8    
72.1    
72.3    
72.5    
72.7    
72.9    
73.2    
73.4    
73.6    
73.8    
74.1    
74.3    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.8    
76.1    
76.3    
76.5    
76.7    
76.9    
77.2    
77.4    
77.6    
77.8    
78.0    
78.3    
78.5    
78.7    
78.9    
79.2    
79.4    
79.6    
79.8    
80.0    
80.3    
80.5    
80.7    
80.9    
81.2    
81.4    
81.6    
81.8    
82.0    
82.3    
82.5    
82.7    
82.9    
83.1    
83.4    
83.6    
83.8    
84.0    
84.3    
84.5    
84.7    
84.9    
85.1    
85.4    
85.6    
85.8    
86.0    
86.3    
86.5    
86.7    
86.9    
87.1    
87.4    
87.6    
87.8    
88.0    
88.2    
88.5    
88.7    
88.9    
89.1    
89.4    
89.6    
89.8    
90.0    
90.2    
90.5    
90.7    
90.9    
91.1    
91.4    
91.6    
91.8    
92.0    
92.2    
92.5    
92.7    
92.9    
93.1    
93.3    
93.6    
93.8    
94.0    
94.2    
94.5    
94.7    
94.9    
95.1    
95.3    
95.6    
95.8    
96.0    
96.2    
96.5    
96.7    
96.9    
97.1    
97.3    
97.6    
97.8    
98.0    
98.2    
98.4    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 5388, rend_intergenic: 4508  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10565, rend_intergenic: 7051  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16280, rend_intergenic: 10726  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33975, rend_intergenic: 30798  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37974, rend_intergenic: 34948  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38750, rend_intergenic: 38364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63169, rend_intergenic: 43188  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92041, rend_intergenic: 78623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109839, rend_intergenic: 107417  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117703, rend_intergenic: 114406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 33702, rend_intergenic: 33699  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support