-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_26/scaffold_26_2315372-2449864

-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_56525-T1
Valid prediction for GeneMark_model.98619_t
Valid prediction for GeneMark_model.98594_t
Valid prediction for Augustus_model.g37641.t1
Valid prediction for GlimmerHMM_glimmerT_56535-T1
Valid prediction for GeneMark_model.98607_t
Valid prediction for GeneMark_model.98587_t
Valid prediction for GeneMark_model.98601_t
Valid prediction for snap_scaffold_26-snap.481-T1
Valid prediction for GlimmerHMM_glimmerT_56538-T1
Valid prediction for GlimmerHMM_glimmerT_56533-T1
Valid prediction for snap_scaffold_26-snap.491-T1
Valid prediction for snap_scaffold_26-snap.498-T1
Valid prediction for snap_scaffold_26-snap.500-T1
Couldn't classify 56600, 56741
Sorry, prediction GeneMark_model.98603_t fails validation.
(AGT)	 AG	56600-56741	GT	AGG
(TAT)	 AG	56768-56824	GT	AAG
(TGG)	 AG	56847-56855	GT	GAG
(TGA)	 AG	56891-56911	GT	GAG
(AAA)	 AG	56933-56980	GT	GGG
(GTG)	 AG	57003-57026	GT	GTG
(TGT)	 AG	57048-57067	GT	AGG
(ATA)	 AG	57093-57108	GT	AGG
(TGT)	 AG	57239-57304	GT	GGG
(AGA)	 AG	57329-57340	GT	GAG
(AGT)	 AG	57434-57457	GT	GAG
(AGA)	 AG	57484-57598	AG	AGA
-recovered GeneMark_model.98603_t, terminal, 57484, 57598
-recovered GeneMark_model.98603_t, internal, 56600, 56741
-recovered GeneMark_model.98603_t, internal, 56768, 56824
-recovered GeneMark_model.98603_t, internal, 56847, 56855
-recovered GeneMark_model.98603_t, internal, 56891, 56911
-recovered GeneMark_model.98603_t, internal, 56933, 56980
-recovered GeneMark_model.98603_t, internal, 57003, 57026
-recovered GeneMark_model.98603_t, internal, 57048, 57067
-recovered GeneMark_model.98603_t, internal, 57093, 57108
-recovered GeneMark_model.98603_t, internal, 57239, 57304
-recovered GeneMark_model.98603_t, internal, 57329, 57340
-recovered GeneMark_model.98603_t, internal, 57434, 57457
Valid prediction for GeneMark_model.98628_t
Valid prediction for Augustus_model.g37640.t1
Valid prediction for Augustus_model.g37639.t1
Valid prediction for snap_scaffold_26-snap.476-T1
Valid prediction for GeneMark_model.98605_t
Valid prediction for snap_scaffold_26-snap.496-T1
Valid prediction for GeneMark_model.98589_t
Valid prediction for GeneMark_model.98599_t
Valid prediction for Augustus_model.g37642.t1
Valid prediction for GeneMark_model.98612_t
Valid prediction for GlimmerHMM_glimmerT_56528-T1
Valid prediction for snap_scaffold_26-snap.493-T1
Valid prediction for GlimmerHMM_glimmerT_56530-T1
Valid prediction for snap_scaffold_26-snap.497-T1
Valid prediction for snap_scaffold_26-snap.489-T1
Valid prediction for GlimmerHMM_glimmerT_56529-T1
Valid prediction for GeneMark_model.98617_t
Valid prediction for GeneMark_model.98592_t
Valid prediction for GlimmerHMM_glimmerT_56527-T1
Valid prediction for GlimmerHMM_glimmerT_56531-T1
Valid prediction for GeneMark_model.98614_t
Valid prediction for GeneMark_model.98595_t
Valid prediction for GlimmerHMM_glimmerT_56532-T1
Valid prediction for GeneMark_model.98622_t
Valid prediction for snap_scaffold_26-snap.479-T1
Valid prediction for GlimmerHMM_glimmerT_56524-T1
Valid prediction for GeneMark_model.98616_t
Valid prediction for GeneMark_model.98597_t
Valid prediction for GeneMark_model.98624_t
Valid prediction for GeneMark_model.98626_t

-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 GeneMark_model.98598_t
Valid prediction for snap_scaffold_26-snap.485-T1
Valid prediction for snap_scaffold_26-snap.492-T1
Valid prediction for GeneMark_model.98591_t
Valid prediction for snap_scaffold_26-snap.501-T1
Valid prediction for GeneMark_model.98627_t
Valid prediction for GeneMark_model.98618_t
Valid prediction for snap_scaffold_26-snap.482-T1
Valid prediction for GlimmerHMM_glimmerT_56534-T1
Valid prediction for GlimmerHMM_glimmerT_56537-T1
Valid prediction for GeneMark_model.98629_t
Valid prediction for GeneMark_model.98615_t
Valid prediction for snap_scaffold_26-snap.483-T1
Valid prediction for snap_scaffold_26-snap.490-T1
Valid prediction for GeneMark_model.98631_t
Valid prediction for GeneMark_model.98620_t
Valid prediction for GeneMark_model.98630_t
Valid prediction for Augustus_model.g37643.t1
Valid prediction for snap_scaffold_26-snap.478-T1
Valid prediction for GeneMark_model.98609_t
Valid prediction for GeneMark_model.98606_t
Valid prediction for snap_scaffold_26-snap.477-T1
Valid prediction for snap_scaffold_26-snap.484-T1
Valid prediction for snap_scaffold_26-snap.487-T1
Valid prediction for GeneMark_model.98586_t
Valid prediction for GeneMark_model.98625_t
Valid prediction for GeneMark_model.98611_t
Valid prediction for GeneMark_model.98621_t
Valid prediction for GeneMark_model.98610_t
Valid prediction for snap_scaffold_26-snap.488-T1
Valid prediction for GlimmerHMM_glimmerT_56539-T1
Valid prediction for GeneMark_model.98613_t
Valid prediction for snap_scaffold_26-snap.480-T1
Valid prediction for GeneMark_model.98604_t
Valid prediction for snap_scaffold_26-snap.494-T1
Valid prediction for GeneMark_model.98623_t
Valid prediction for snap_scaffold_26-snap.486-T1
Valid prediction for GlimmerHMM_glimmerT_56536-T1
Valid prediction for GeneMark_model.98590_t
Valid prediction for GlimmerHMM_glimmerT_56526-T1
Couldn't classify 89683, 89840
Sorry, prediction GeneMark_model.98602_t fails validation.
(TCC)	 AG	89683-89840	GT	AGG
(AGG)	 AG	89864-89986	GC	AAG
(AAC)	 AG	90010-90067	TT	AAT
-recovered GeneMark_model.98602_t, terminal, 90010, 90067
-recovered GeneMark_model.98602_t, internal, 89683, 89840
-recovered GeneMark_model.98602_t, internal, 89864, 89986
Valid prediction for GeneMark_model.98608_t
Valid prediction for snap_scaffold_26-snap.495-T1
Valid prediction for GeneMark_model.98600_t
Valid prediction for GeneMark_model.98596_t
Valid prediction for GeneMark_model.98588_t
Valid prediction for GeneMark_model.98593_t
Valid prediction for snap_scaffold_26-snap.499-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17981, rend_intergenic: 11202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28483, rend_intergenic: 19586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31919, rend_intergenic: 28774  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66860, rend_intergenic: 33126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72468, rend_intergenic: 66939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78980, rend_intergenic: 72985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79953, rend_intergenic: 79009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87140, rend_intergenic: 80343  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89431, rend_intergenic: 87172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104332, rend_intergenic: 93539  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113770, rend_intergenic: 109863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130952, rend_intergenic: 114251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 134493
-exon list size: 542


building trellis

0.2    
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1.1    
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2.6    
2.8    
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3.9    
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5.5    
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6.8    
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7.2    
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7.5    
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7.9    
8.1    
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8.8    
9.0    
9.2    
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10.8    
11.0    
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11.6    
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11.9    
12.1    
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12.9    
13.1    
13.2    
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13.8    
14.0    
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15.8    
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16.9    
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17.8    
18.0    
18.2    
18.4    
18.6    
18.8    
18.9    
19.1    
19.3    
19.5    
19.7    
19.9    
20.0    
20.2    
20.4    
20.6    
20.8    
21.0    
21.1    
21.3    
21.5    
21.7    
21.9    
22.1    
22.2    
22.4    
22.6    
22.8    
23.0    
23.2    
23.3    
23.5    
23.7    
23.9    
24.1    
24.3    
24.4    
24.6    
24.8    
25.0    
25.2    
25.4    
25.6    
25.7    
25.9    
26.1    
26.3    
26.5    
26.7    
26.8    
27.0    
27.2    
27.4    
27.6    
27.8    
27.9    
28.1    
28.3    
28.5    
28.7    
28.9    
29.0    
29.2    
29.4    
29.6    
29.8    
30.0    
30.1    
30.3    
30.5    
30.7    
30.9    
31.1    
31.2    
31.4    
31.6    
31.8    
32.0    
32.2    
32.4    
32.5    
32.7    
32.9    
33.1    
33.3    
33.5    
33.6    
33.8    
34.0    
34.2    
34.4    
34.6    
34.7    
34.9    
35.1    
35.3    
35.5    
35.7    
35.8    
36.0    
36.2    
36.4    
36.6    
36.8    
36.9    
37.1    
37.3    
37.5    
37.7    
37.9    
38.1    
38.2    
38.4    
38.6    
38.8    
39.0    
39.2    
39.3    
39.5    
39.7    
39.9    
40.1    
40.3    
40.4    
40.6    
40.8    
41.0    
41.2    
41.4    
41.5    
41.7    
41.9    
42.1    
42.3    
42.5    
42.6    
42.8    
43.0    
43.2    
43.4    
43.6    
43.8    
43.9    
44.1    
44.3    
44.5    
44.7    
44.9    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.1    
46.3    
46.5    
46.7    
46.9    
47.1    
47.2    
47.4    
47.6    
47.8    
48.0    
48.2    
48.3    
48.5    
48.7    
48.9    
49.1    
49.3    
49.4    
49.6    
49.8    
50.0    
50.2    
50.4    
50.6    
50.7    
50.9    
51.1    
51.3    
51.5    
51.7    
51.8    
52.0    
52.2    
52.4    
52.6    
52.8    
52.9    
53.1    
53.3    
53.5    
53.7    
53.9    
54.0    
54.2    
54.4    
54.6    
54.8    
55.0    
55.1    
55.3    
55.5    
55.7    
55.9    
56.1    
56.2    
56.4    
56.6    
56.8    
57.0    
57.2    
57.4    
57.5    
57.7    
57.9    
58.1    
58.3    
58.5    
58.6    
58.8    
59.0    
59.2    
59.4    
59.6    
59.7    
59.9    
60.1    
60.3    
60.5    
60.7    
60.8    
61.0    
61.2    
61.4    
61.6    
61.8    
61.9    
62.1    
62.3    
62.5    
62.7    
62.9    
63.1    
63.2    
63.4    
63.6    
63.8    
64.0    
64.2    
64.3    
64.5    
64.7    
64.9    
65.1    
65.3    
65.4    
65.6    
65.8    
66.0    
66.2    
66.4    
66.5    
66.7    
66.9    
67.1    
67.3    
67.5    
67.6    
67.8    
68.0    
68.2    
68.4    
68.6    
68.8    
68.9    
69.1    
69.3    
69.5    
69.7    
69.9    
70.0    
70.2    
70.4    
70.6    
70.8    
71.0    
71.1    
71.3    
71.5    
71.7    
71.9    
72.1    
72.2    
72.4    
72.6    
72.8    
73.0    
73.2    
73.3    
73.5    
73.7    
73.9    
74.1    
74.3    
74.4    
74.6    
74.8    
75.0    
75.2    
75.4    
75.6    
75.7    
75.9    
76.1    
76.3    
76.5    
76.7    
76.8    
77.0    
77.2    
77.4    
77.6    
77.8    
77.9    
78.1    
78.3    
78.5    
78.7    
78.9    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.1    
80.3    
80.5    
80.7    
80.9    
81.1    
81.2    
81.4    
81.6    
81.8    
82.0    
82.2    
82.4    
82.5    
82.7    
82.9    
83.1    
83.3    
83.5    
83.6    
83.8    
84.0    
84.2    
84.4    
84.6    
84.7    
84.9    
85.1    
85.3    
85.5    
85.7    
85.8    
86.0    
86.2    
86.4    
86.6    
86.8    
86.9    
87.1    
87.3    
87.5    
87.7    
87.9    
88.1    
88.2    
88.4    
88.6    
88.8    
89.0    
89.2    
89.3    
89.5    
89.7    
89.9    
90.1    
90.3    
90.4    
90.6    
90.8    
91.0    
91.2    
91.4    
91.5    
91.7    
91.9    
92.1    
92.3    
92.5    
92.6    
92.8    
93.0    
93.2    
93.4    
93.6    
93.8    
93.9    
94.1    
94.3    
94.5    
94.7    
94.9    
95.0    
95.2    
95.4    
95.6    
95.8    
96.0    
96.1    
96.3    
96.5    
96.7    
96.9    
97.1    
97.2    
97.4    
97.6    
97.8    
98.0    
98.2    
98.3    
98.5    
98.7    
98.9    
99.1    
99.3    
99.4    
99.6    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 17981, rend_intergenic: 11202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28483, rend_intergenic: 19586  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31919, rend_intergenic: 28774  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66860, rend_intergenic: 33126  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72468, rend_intergenic: 66939  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78980, rend_intergenic: 72985  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79953, rend_intergenic: 79009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87140, rend_intergenic: 80343  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89431, rend_intergenic: 87172  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104332, rend_intergenic: 93539  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113770, rend_intergenic: 109863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130952, rend_intergenic: 114251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 5 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 118755 - 134493
-exon list size: 48


building trellis

2.0    
4.0    
6.0    
8.0    
10.0    
12.0    
14.0    
16.0    
18.0    
20.0    
22.0    
24.0    
26.0    
28.0    
30.0    
32.0    
34.0    
36.0    
38.0    
40.0    
42.0    
44.0    
46.0    
48.0    
50.0    
52.0    
54.0    
56.0    
58.0    
60.0    
62.0    
64.0    
66.0    
68.0    
70.0    
72.0    
74.0    
76.0    
78.0    
80.0    
82.0    
84.0    
86.0    
88.0    
90.0    
92.0    
94.0    
96.0    
98.0    
-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 118755 - 133520
-exon list size: 46


building trellis

2.1    
4.2    
6.2    
8.3    
10.4    
12.5    
14.6    
16.7    
18.8    
20.8    
22.9    
25.0    
27.1    
29.2    
31.2    
33.3    
35.4    
37.5    
39.6    
41.7    
43.8    
45.8    
47.9    
50.0    
52.1    
54.2    
56.2    
58.3    
60.4    
62.5    
64.6    
66.7    
68.8    
70.8    
72.9    
75.0    
77.1    
79.2    
81.2    
83.3    
85.4    
87.5    
89.6    
91.7    
93.8    
95.8    
97.9    
-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 118755 - 130812
-exon list size: 36


building trellis

2.6    
5.3    
7.9    
10.5    
13.2    
15.8    
18.4    
21.1    
23.7    
26.3    
28.9    
31.6    
34.2    
36.8    
39.5    
42.1    
44.7    
47.4    
50.0    
52.6    
55.3    
57.9    
60.5    
63.2    
65.8    
68.4    
71.1    
73.7    
76.3    
78.9    
81.6    
84.2    
86.8    
89.5    
92.1    
94.7    
97.4    
-found 1 predictions from path traversal

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