-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_10/scaffold_10_15527816-15749897

-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.45680_t
Valid prediction for GeneMark_model.45686_t
Valid prediction for Augustus_model.g17816.t1
Valid prediction for snap_scaffold_10-snap.3177-T1
Valid prediction for GlimmerHMM_glimmerT_26548-T1
Valid prediction for snap_scaffold_10-snap.3168-T1
Couldn't classify 156273, 156519
Sorry, prediction GeneMark_model.45687_t fails validation.
(ATG)	 CT	155805-155808	GT	GGG
(GTG)	 AG	156060-156066	GT	GGG
(CAA)	 AG	156273-156519	GT	AGG
-recovered GeneMark_model.45687_t, initial, 155805, 155808
-recovered GeneMark_model.45687_t, internal, 156060, 156066
-recovered GeneMark_model.45687_t, internal, 156273, 156519
Valid prediction for snap_scaffold_10-snap.3171-T1
Valid prediction for GlimmerHMM_glimmerT_26564-T1
Valid prediction for snap_scaffold_10-snap.3179-T1
Valid prediction for snap_scaffold_10-snap.3180-T1
Valid prediction for GeneMark_model.45652_t
Valid prediction for GeneMark_model.45655_t
Valid prediction for Augustus_model.g17815.t1
Valid prediction for snap_scaffold_10-snap.3153-T1
Valid prediction for snap_scaffold_10-snap.3189-T1
Valid prediction for GeneMark_model.45681_t
Valid prediction for Augustus_model.g17808.t1
Valid prediction for GlimmerHMM_glimmerT_26559-T1
Valid prediction for snap_scaffold_10-snap.3152-T1
Valid prediction for GlimmerHMM_glimmerT_26565-T1
Valid prediction for GeneMark_model.45660_t
Valid prediction for snap_scaffold_10-snap.3192-T1
Valid prediction for GeneMark_model.45695_t
Valid prediction for GeneMark_model.45696_t
Valid prediction for snap_scaffold_10-snap.3163-T1
Valid prediction for snap_scaffold_10-snap.3160-T1
Valid prediction for snap_scaffold_10-snap.3185-T1
Valid prediction for GeneMark_model.45671_t
Valid prediction for GeneMark_model.45664_t
Valid prediction for snap_scaffold_10-snap.3174-T1
Valid prediction for GeneMark_model.45677_t
Valid prediction for GeneMark_model.45692_t
Couldn't classify 64888, 65334
Sorry, prediction pasa_asmbl_4968.p1 fails validation.
(ATT)	 AC	64888-65334	TA	GGT
Valid prediction for Augustus_model.g17802.t1
Valid prediction for GlimmerHMM_glimmerT_26544-T1
Valid prediction for GeneMark_model.45667_t
Valid prediction for Augustus_model.g17803.t1
Valid prediction for GeneMark_model.45674_t
Valid prediction for snap_scaffold_10-snap.3169-T1
Valid prediction for GlimmerHMM_glimmerT_26549-T1
Valid prediction for GlimmerHMM_glimmerT_26555-T1
Valid prediction for snap_scaffold_10-snap.3182-T1
Valid prediction for snap_scaffold_10-snap.3164-T1
Couldn't classify 162286, 162442
Sorry, prediction GeneMark_model.45688_t fails validation.
(CTG)	 AG	162286-162442	GT	AGG
(GAA)	 AG	163360-163522	GT	GGG
(AGT)	 AG	164748-164762	CA	GAC
-recovered GeneMark_model.45688_t, terminal, 164748, 164762
-recovered GeneMark_model.45688_t, internal, 162286, 162442
-recovered GeneMark_model.45688_t, internal, 163360, 163522
Valid prediction for GlimmerHMM_glimmerT_26557-T1
Valid prediction for GeneMark_model.45665_t
Valid prediction for GeneMark_model.45694_t
Valid prediction for GeneMark_model.45675_t
Valid prediction for Augustus_model.g17809.t1
Valid prediction for snap_scaffold_10-snap.3191-T1
Valid prediction for GeneMark_model.45656_t
Valid prediction for GeneMark_model.45693_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 Augustus_model.g17805.t1
Valid prediction for snap_scaffold_10-snap.3156-T1
Valid prediction for GeneMark_model.45683_t
Valid prediction for snap_scaffold_10-snap.3187-T1
Valid prediction for GlimmerHMM_glimmerT_26547-T1
Valid prediction for GeneMark_model.45682_t
Valid prediction for snap_scaffold_10-snap.3190-T1
Valid prediction for GlimmerHMM_glimmerT_26552-T1
Valid prediction for GlimmerHMM_glimmerT_26551-T1
Valid prediction for snap_scaffold_10-snap.3178-T1
Valid prediction for GeneMark_model.45669_t
Valid prediction for snap_scaffold_10-snap.3176-T1
Valid prediction for Augustus_model.g17812.t1
Valid prediction for Augustus_model.g17801.t1
Valid prediction for GlimmerHMM_glimmerT_26560-T1
Valid prediction for GeneMark_model.45653_t
Valid prediction for snap_scaffold_10-snap.3166-T1
Valid prediction for GlimmerHMM_glimmerT_26558-T1
Valid prediction for Augustus_model.g17810.t1
Valid prediction for GeneMark_model.45678_t
Valid prediction for snap_scaffold_10-snap.3170-T1
Valid prediction for GeneMark_model.45673_t
Valid prediction for GeneMark_model.45666_t
Valid prediction for snap_scaffold_10-snap.3167-T1
Valid prediction for snap_scaffold_10-snap.3161-T1
Valid prediction for GeneMark_model.45676_t
Valid prediction for snap_scaffold_10-snap.3183-T1
Valid prediction for snap_scaffold_10-snap.3172-T1
Valid prediction for Augustus_model.g17813.t1
Valid prediction for Augustus_model.g17814.t1
Valid prediction for GlimmerHMM_glimmerT_26553-T1
Valid prediction for GeneMark_model.45689_t
Valid prediction for GlimmerHMM_glimmerT_26546-T1
Valid prediction for GeneMark_model.45690_t
Valid prediction for GeneMark_model.45662_t
Valid prediction for snap_scaffold_10-snap.3173-T1
Valid prediction for GlimmerHMM_glimmerT_26545-T1
Valid prediction for snap_scaffold_10-snap.3175-T1
Valid prediction for Augustus_model.g17811.t1
Valid prediction for GeneMark_model.45670_t
Valid prediction for GeneMark_model.45654_t
Valid prediction for snap_scaffold_10-snap.3157-T1
Valid prediction for snap_scaffold_10-snap.3155-T1
Valid prediction for Augustus_model.g17806.t1
Valid prediction for snap_scaffold_10-snap.3151-T1
Valid prediction for snap_scaffold_10-snap.3186-T1
Valid prediction for GeneMark_model.45659_t
Valid prediction for snap_scaffold_10-snap.3150-T1
Valid prediction for Augustus_model.g17804.t1
Valid prediction for snap_scaffold_10-snap.3162-T1
Valid prediction for GeneMark_model.45679_t
Valid prediction for GlimmerHMM_glimmerT_26550-T1
Valid prediction for GeneMark_model.45658_t
Valid prediction for snap_scaffold_10-snap.3158-T1
Valid prediction for Augustus_model.g17807.t1
Valid prediction for GeneMark_model.45663_t
Valid prediction for GlimmerHMM_glimmerT_26562-T1
Valid prediction for GlimmerHMM_glimmerT_26563-T1
Valid prediction for snap_scaffold_10-snap.3165-T1
Valid prediction for snap_scaffold_10-snap.3188-T1
Valid prediction for snap_scaffold_10-snap.3154-T1
Valid prediction for GeneMark_model.45668_t
Valid prediction for snap_scaffold_10-snap.3159-T1
Valid prediction for GeneMark_model.45685_t
Valid prediction for GeneMark_model.45691_t
Valid prediction for GeneMark_model.45657_t
Valid prediction for GlimmerHMM_glimmerT_26554-T1
Valid prediction for snap_scaffold_10-snap.3184-T1
Valid prediction for snap_scaffold_10-snap.3181-T1
Valid prediction for snap_scaffold_10-snap.3149-T1
Valid prediction for GlimmerHMM_glimmerT_26561-T1
Valid prediction for GlimmerHMM_glimmerT_26556-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 70222, rend_intergenic: 66153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72404, rend_intergenic: 70891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93404, rend_intergenic: 91016  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100265, rend_intergenic: 96106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111130, rend_intergenic: 102709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122737, rend_intergenic: 116341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145311, rend_intergenic: 141660  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176638, rend_intergenic: 151608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218818, rend_intergenic: 207251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 222082
-exon list size: 594


building trellis

0.2    
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3.9    
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6.5    
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6.9    
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8.1    
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8.4    
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8.7    
8.9    
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9.4    
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11.9    
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12.8    
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13.4    
13.6    
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13.9    
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15.9    
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16.6    
16.8    
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17.6    
17.8    
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18.1    
18.3    
18.5    
18.6    
18.8    
19.0    
19.1    
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19.6    
19.8    
20.0    
20.1    
20.3    
20.5    
20.6    
20.8    
21.0    
21.1    
21.3    
21.5    
21.6    
21.8    
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22.1    
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22.5    
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22.8    
23.0    
23.2    
23.3    
23.5    
23.7    
23.8    
24.0    
24.2    
24.3    
24.5    
24.7    
24.8    
25.0    
25.2    
25.3    
25.5    
25.7    
25.8    
26.0    
26.2    
26.3    
26.5    
26.7    
26.8    
27.0    
27.2    
27.3    
27.5    
27.7    
27.9    
28.0    
28.2    
28.4    
28.5    
28.7    
28.9    
29.0    
29.2    
29.4    
29.5    
29.7    
29.9    
30.0    
30.2    
30.4    
30.5    
30.7    
30.9    
31.0    
31.2    
31.4    
31.5    
31.7    
31.9    
32.0    
32.2    
32.4    
32.6    
32.7    
32.9    
33.1    
33.2    
33.4    
33.6    
33.7    
33.9    
34.1    
34.2    
34.4    
34.6    
34.7    
34.9    
35.1    
35.2    
35.4    
35.6    
35.7    
35.9    
36.1    
36.2    
36.4    
36.6    
36.7    
36.9    
37.1    
37.2    
37.4    
37.6    
37.8    
37.9    
38.1    
38.3    
38.4    
38.6    
38.8    
38.9    
39.1    
39.3    
39.4    
39.6    
39.8    
39.9    
40.1    
40.3    
40.4    
40.6    
40.8    
40.9    
41.1    
41.3    
41.4    
41.6    
41.8    
41.9    
42.1    
42.3    
42.4    
42.6    
42.8    
43.0    
43.1    
43.3    
43.5    
43.6    
43.8    
44.0    
44.1    
44.3    
44.5    
44.6    
44.8    
45.0    
45.1    
45.3    
45.5    
45.6    
45.8    
46.0    
46.1    
46.3    
46.5    
46.6    
46.8    
47.0    
47.1    
47.3    
47.5    
47.7    
47.8    
48.0    
48.2    
48.3    
48.5    
48.7    
48.8    
49.0    
49.2    
49.3    
49.5    
49.7    
49.8    
50.0    
50.2    
50.3    
50.5    
50.7    
50.8    
51.0    
51.2    
51.3    
51.5    
51.7    
51.8    
52.0    
52.2    
52.3    
52.5    
52.7    
52.9    
53.0    
53.2    
53.4    
53.5    
53.7    
53.9    
54.0    
54.2    
54.4    
54.5    
54.7    
54.9    
55.0    
55.2    
55.4    
55.5    
55.7    
55.9    
56.0    
56.2    
56.4    
56.5    
56.7    
56.9    
57.0    
57.2    
57.4    
57.6    
57.7    
57.9    
58.1    
58.2    
58.4    
58.6    
58.7    
58.9    
59.1    
59.2    
59.4    
59.6    
59.7    
59.9    
60.1    
60.2    
60.4    
60.6    
60.7    
60.9    
61.1    
61.2    
61.4    
61.6    
61.7    
61.9    
62.1    
62.2    
62.4    
62.6    
62.8    
62.9    
63.1    
63.3    
63.4    
63.6    
63.8    
63.9    
64.1    
64.3    
64.4    
64.6    
64.8    
64.9    
65.1    
65.3    
65.4    
65.6    
65.8    
65.9    
66.1    
66.3    
66.4    
66.6    
66.8    
66.9    
67.1    
67.3    
67.4    
67.6    
67.8    
68.0    
68.1    
68.3    
68.5    
68.6    
68.8    
69.0    
69.1    
69.3    
69.5    
69.6    
69.8    
70.0    
70.1    
70.3    
70.5    
70.6    
70.8    
71.0    
71.1    
71.3    
71.5    
71.6    
71.8    
72.0    
72.1    
72.3    
72.5    
72.7    
72.8    
73.0    
73.2    
73.3    
73.5    
73.7    
73.8    
74.0    
74.2    
74.3    
74.5    
74.7    
74.8    
75.0    
75.2    
75.3    
75.5    
75.7    
75.8    
76.0    
76.2    
76.3    
76.5    
76.7    
76.8    
77.0    
77.2    
77.3    
77.5    
77.7    
77.9    
78.0    
78.2    
78.4    
78.5    
78.7    
78.9    
79.0    
79.2    
79.4    
79.5    
79.7    
79.9    
80.0    
80.2    
80.4    
80.5    
80.7    
80.9    
81.0    
81.2    
81.4    
81.5    
81.7    
81.9    
82.0    
82.2    
82.4    
82.6    
82.7    
82.9    
83.1    
83.2    
83.4    
83.6    
83.7    
83.9    
84.1    
84.2    
84.4    
84.6    
84.7    
84.9    
85.1    
85.2    
85.4    
85.6    
85.7    
85.9    
86.1    
86.2    
86.4    
86.6    
86.7    
86.9    
87.1    
87.2    
87.4    
87.6    
87.8    
87.9    
88.1    
88.3    
88.4    
88.6    
88.8    
88.9    
89.1    
89.3    
89.4    
89.6    
89.8    
89.9    
90.1    
90.3    
90.4    
90.6    
90.8    
90.9    
91.1    
91.3    
91.4    
91.6    
91.8    
91.9    
92.1    
92.3    
92.4    
92.6    
92.8    
93.0    
93.1    
93.3    
93.5    
93.6    
93.8    
94.0    
94.1    
94.3    
94.5    
94.6    
94.8    
95.0    
95.1    
95.3    
95.5    
95.6    
95.8    
96.0    
96.1    
96.3    
96.5    
96.6    
96.8    
97.0    
97.1    
97.3    
97.5    
97.7    
97.8    
98.0    
98.2    
98.3    
98.5    
98.7    
98.8    
99.0    
99.2    
99.3    
99.5    
99.7    
99.8    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 70222, rend_intergenic: 66153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72404, rend_intergenic: 70891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93404, rend_intergenic: 91016  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100265, rend_intergenic: 96106  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111130, rend_intergenic: 102709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122737, rend_intergenic: 116341  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145311, rend_intergenic: 141660  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176638, rend_intergenic: 151608  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 218818, rend_intergenic: 207251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 211396 - 222082
-exon list size: 19


building trellis

4.8    
9.5    
14.3    
19.0    
23.8    
28.6    
33.3    
38.1    
42.9    
47.6    
52.4    
57.1    
61.9    
66.7    
71.4    
76.2    
81.0    
85.7    
90.5    
95.2    
-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 211914 - 222082
-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