-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_13232751-13488885

-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_16-snap.2567-T1
Valid prediction for snap_scaffold_16-snap.2530-T1
Valid prediction for GlimmerHMM_glimmerT_39328-T1
Valid prediction for snap_scaffold_16-snap.2529-T1
Valid prediction for GlimmerHMM_glimmerT_39327-T1
Valid prediction for snap_scaffold_16-snap.2517-T1
Valid prediction for Augustus_model.g26238.t1
Valid prediction for Augustus_model.g26241.t1
Valid prediction for snap_scaffold_16-snap.2519-T1
Valid prediction for snap_scaffold_16-snap.2540-T1
Valid prediction for snap_scaffold_16-snap.2555-T1
Valid prediction for snap_scaffold_16-snap.2546-T1
Couldn't classify 31904, 32233
Sorry, prediction pasa_asmbl_17549.p1 fails validation.
(ATG)	 AG	31904-32233	CT	TTC
Valid prediction for snap_scaffold_16-snap.2561-T1
Valid prediction for snap_scaffold_16-snap.2549-T1
Valid prediction for snap_scaffold_16-snap.2560-T1
Valid prediction for GlimmerHMM_glimmerT_39320-T1
Valid prediction for snap_scaffold_16-snap.2533-T1
Valid prediction for snap_scaffold_16-snap.2566-T1
Valid prediction for snap_scaffold_16-snap.2547-T1
Valid prediction for snap_scaffold_16-snap.2551-T1
Valid prediction for snap_scaffold_16-snap.2545-T1
Valid prediction for snap_scaffold_16-snap.2537-T1
Valid prediction for GlimmerHMM_glimmerT_39317-T1
Valid prediction for snap_scaffold_16-snap.2554-T1
Valid prediction for snap_scaffold_16-snap.2563-T1
Valid prediction for Augustus_model.g26243.t1
Valid prediction for GlimmerHMM_glimmerT_39332-T1
Valid prediction for snap_scaffold_16-snap.2518-T1
Valid prediction for GlimmerHMM_glimmerT_39315-T1
Valid prediction for GlimmerHMM_glimmerT_39326-T1
Valid prediction for GlimmerHMM_glimmerT_39333-T1
Valid prediction for GlimmerHMM_glimmerT_39339-T1
Valid prediction for snap_scaffold_16-snap.2523-T1
Valid prediction for snap_scaffold_16-snap.2538-T1
Valid prediction for Augustus_model.g26244.t1
Valid prediction for snap_scaffold_16-snap.2521-T1
Valid prediction for Augustus_model.g26236.t1
Valid prediction for snap_scaffold_16-snap.2527-T1
Valid prediction for GlimmerHMM_glimmerT_39335-T1
Valid prediction for GlimmerHMM_glimmerT_39331-T1
Couldn't classify 255082, 255519
Sorry, prediction pasa_asmbl_16736.p1 fails validation.
(TAC)	 TC	255082-255519	AC	AAA
Valid prediction for snap_scaffold_16-snap.2524-T1
Valid prediction for GlimmerHMM_glimmerT_39330-T1
Valid prediction for GlimmerHMM_glimmerT_39324-T1
Valid prediction for snap_scaffold_16-snap.2553-T1
Valid prediction for snap_scaffold_16-snap.2558-T1
Valid prediction for GlimmerHMM_glimmerT_39341-T1
Valid prediction for snap_scaffold_16-snap.2556-T1
Valid prediction for snap_scaffold_16-snap.2526-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.2543-T1
Valid prediction for snap_scaffold_16-snap.2525-T1
Valid prediction for GlimmerHMM_glimmerT_39337-T1
Valid prediction for snap_scaffold_16-snap.2535-T1
Valid prediction for Augustus_model.g26242.t1
Valid prediction for GlimmerHMM_glimmerT_39323-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 Augustus_model.g26249.t1
Valid prediction for Augustus_model.g26245.t1
Valid prediction for snap_scaffold_16-snap.2552-T1
Valid prediction for snap_scaffold_16-snap.2559-T1
Valid prediction for snap_scaffold_16-snap.2557-T1
Valid prediction for Augustus_model.g26246.t1
Couldn't classify 161774, 161789
Couldn't classify 163650, 163692
Sorry, prediction pasa_asmbl_17408.p1 fails validation.
(TTG)	 AC	161774-161789	GT	AGG
(AAA)	 AG	161949-162004	GT	AGG
(GAG)	 AG	162254-162367	GT	AGG
(GAC)	 AG	162835-163020	GT	AGG
(CAA)	 AG	163177-163271	GT	AGG
(TGA)	 AG	163650-163692	AC	CCA
-recovered pasa_asmbl_17408.p1, internal, 161949, 162004
-recovered pasa_asmbl_17408.p1, internal, 162254, 162367
-recovered pasa_asmbl_17408.p1, internal, 162835, 163020
-recovered pasa_asmbl_17408.p1, internal, 163177, 163271
Valid prediction for Augustus_model.g26237.t1
Valid prediction for GlimmerHMM_glimmerT_39316-T1
Valid prediction for GlimmerHMM_glimmerT_39319-T1
Valid prediction for snap_scaffold_16-snap.2544-T1
Valid prediction for GlimmerHMM_glimmerT_39314-T1
Valid prediction for GlimmerHMM_glimmerT_39338-T1
Valid prediction for GlimmerHMM_glimmerT_39318-T1
Valid prediction for snap_scaffold_16-snap.2516-T1
Valid prediction for snap_scaffold_16-snap.2564-T1
Valid prediction for snap_scaffold_16-snap.2532-T1
Valid prediction for snap_scaffold_16-snap.2536-T1
Valid prediction for Augustus_model.g26233.t1
Valid prediction for Augustus_model.g26250.t1
Valid prediction for GlimmerHMM_glimmerT_39321-T1
Valid prediction for snap_scaffold_16-snap.2520-T1
Valid prediction for snap_scaffold_16-snap.2548-T1
Valid prediction for snap_scaffold_16-snap.2542-T1
Valid prediction for snap_scaffold_16-snap.2562-T1
Valid prediction for pasa_asmbl_17404.p3
Valid prediction for GlimmerHMM_glimmerT_39322-T1
Valid prediction for Augustus_model.g26248.t1
Valid prediction for GlimmerHMM_glimmerT_39325-T1
Valid prediction for Augustus_model.g26240.t1
Valid prediction for Augustus_model.g26247.t1
Valid prediction for snap_scaffold_16-snap.2568-T1
Valid prediction for snap_scaffold_16-snap.2522-T1
Valid prediction for snap_scaffold_16-snap.2539-T1
Valid prediction for snap_scaffold_16-snap.2570-T1
Valid prediction for snap_scaffold_16-snap.2565-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g26239.t1
Valid prediction for GlimmerHMM_glimmerT_39329-T1
Valid prediction for Augustus_model.g26234.t1
Valid prediction for snap_scaffold_16-snap.2528-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_39340-T1
Valid prediction for Augustus_model.g26235.t1
Valid prediction for snap_scaffold_16-snap.2550-T1
Valid prediction for GlimmerHMM_glimmerT_39336-T1
Valid prediction for snap_scaffold_16-snap.2541-T1
Valid prediction for GlimmerHMM_glimmerT_39334-T1
Valid prediction for snap_scaffold_16-snap.2531-T1
Valid prediction for snap_scaffold_16-snap.2534-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8488, rend_intergenic: 1521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19469, rend_intergenic: 9506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25141, rend_intergenic: 20288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35966, rend_intergenic: 31904  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66875, rend_intergenic: 44013  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84931, rend_intergenic: 68080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88780, rend_intergenic: 84943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97373, rend_intergenic: 91265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110725, rend_intergenic: 104503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122914, rend_intergenic: 113901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123193, rend_intergenic: 123067  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124837, rend_intergenic: 123283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145819, rend_intergenic: 136677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157558, rend_intergenic: 149183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160521, rend_intergenic: 158963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174405, rend_intergenic: 163302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188343, rend_intergenic: 180068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193064, rend_intergenic: 188564  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202675, rend_intergenic: 195280  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211779, rend_intergenic: 203879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 217006, rend_intergenic: 212440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 221342, rend_intergenic: 217892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 239268, rend_intergenic: 223716  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 256135
-exon list size: 424


building trellis

0.2    
0.5    
0.7    
0.9    
1.2    
1.4    
1.6    
1.9    
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2.3    
2.6    
2.8    
3.1    
3.3    
3.5    
3.8    
4.0    
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4.9    
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5.4    
5.6    
5.9    
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7.0    
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9.2    
9.4    
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9.9    
10.1    
10.3    
10.6    
10.8    
11.0    
11.3    
11.5    
11.7    
12.0    
12.2    
12.4    
12.7    
12.9    
13.1    
13.4    
13.6    
13.8    
14.1    
14.3    
14.6    
14.8    
15.0    
15.3    
15.5    
15.7    
16.0    
16.2    
16.4    
16.7    
16.9    
17.1    
17.4    
17.6    
17.8    
18.1    
18.3    
18.5    
18.8    
19.0    
19.2    
19.5    
19.7    
20.0    
20.2    
20.4    
20.7    
20.9    
21.1    
21.4    
21.6    
21.8    
22.1    
22.3    
22.5    
22.8    
23.0    
23.2    
23.5    
23.7    
23.9    
24.2    
24.4    
24.6    
24.9    
25.1    
25.4    
25.6    
25.8    
26.1    
26.3    
26.5    
26.8    
27.0    
27.2    
27.5    
27.7    
27.9    
28.2    
28.4    
28.6    
28.9    
29.1    
29.3    
29.6    
29.8    
30.0    
30.3    
30.5    
30.8    
31.0    
31.2    
31.5    
31.7    
31.9    
32.2    
32.4    
32.6    
32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.3    
34.5    
34.7    
35.0    
35.2    
35.4    
35.7    
35.9    
36.2    
36.4    
36.6    
36.9    
37.1    
37.3    
37.6    
37.8    
38.0    
38.3    
38.5    
38.7    
39.0    
39.2    
39.4    
39.7    
39.9    
40.1    
40.4    
40.6    
40.8    
41.1    
41.3    
41.5    
41.8    
42.0    
42.3    
42.5    
42.7    
43.0    
43.2    
43.4    
43.7    
43.9    
44.1    
44.4    
44.6    
44.8    
45.1    
45.3    
45.5    
45.8    
46.0    
46.2    
46.5    
46.7    
46.9    
47.2    
47.4    
47.7    
47.9    
48.1    
48.4    
48.6    
48.8    
49.1    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
50.9    
51.2    
51.4    
51.6    
51.9    
52.1    
52.3    
52.6    
52.8    
53.1    
53.3    
53.5    
53.8    
54.0    
54.2    
54.5    
54.7    
54.9    
55.2    
55.4    
55.6    
55.9    
56.1    
56.3    
56.6    
56.8    
57.0    
57.3    
57.5    
57.7    
58.0    
58.2    
58.5    
58.7    
58.9    
59.2    
59.4    
59.6    
59.9    
60.1    
60.3    
60.6    
60.8    
61.0    
61.3    
61.5    
61.7    
62.0    
62.2    
62.4    
62.7    
62.9    
63.1    
63.4    
63.6    
63.8    
64.1    
64.3    
64.6    
64.8    
65.0    
65.3    
65.5    
65.7    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
67.4    
67.6    
67.8    
68.1    
68.3    
68.5    
68.8    
69.0    
69.2    
69.5    
69.7    
70.0    
70.2    
70.4    
70.7    
70.9    
71.1    
71.4    
71.6    
71.8    
72.1    
72.3    
72.5    
72.8    
73.0    
73.2    
73.5    
73.7    
73.9    
74.2    
74.4    
74.6    
74.9    
75.1    
75.4    
75.6    
75.8    
76.1    
76.3    
76.5    
76.8    
77.0    
77.2    
77.5    
77.7    
77.9    
78.2    
78.4    
78.6    
78.9    
79.1    
79.3    
79.6    
79.8    
80.0    
80.3    
80.5    
80.8    
81.0    
81.2    
81.5    
81.7    
81.9    
82.2    
82.4    
82.6    
82.9    
83.1    
83.3    
83.6    
83.8    
84.0    
84.3    
84.5    
84.7    
85.0    
85.2    
85.4    
85.7    
85.9    
86.2    
86.4    
86.6    
86.9    
87.1    
87.3    
87.6    
87.8    
88.0    
88.3    
88.5    
88.7    
89.0    
89.2    
89.4    
89.7    
89.9    
90.1    
90.4    
90.6    
90.8    
91.1    
91.3    
91.5    
91.8    
92.0    
92.3    
92.5    
92.7    
93.0    
93.2    
93.4    
93.7    
93.9    
94.1    
94.4    
94.6    
94.8    
95.1    
95.3    
95.5    
95.8    
96.0    
96.2    
96.5    
96.7    
96.9    
97.2    
97.4    
97.7    
97.9    
98.1    
98.4    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 8488, rend_intergenic: 1521  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19469, rend_intergenic: 9506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25141, rend_intergenic: 20288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35966, rend_intergenic: 31904  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66875, rend_intergenic: 44013  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84931, rend_intergenic: 68080  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88780, rend_intergenic: 84943  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97373, rend_intergenic: 91265  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110725, rend_intergenic: 104503  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122914, rend_intergenic: 113901  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123193, rend_intergenic: 123067  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124837, rend_intergenic: 123283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145819, rend_intergenic: 136677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157558, rend_intergenic: 149183  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160521, rend_intergenic: 158963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174405, rend_intergenic: 163302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188343, rend_intergenic: 180068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193064, rend_intergenic: 188564  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202675, rend_intergenic: 195280  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211779, rend_intergenic: 203879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 217006, rend_intergenic: 212440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 221342, rend_intergenic: 217892  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 239268, rend_intergenic: 223716  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support