-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_17122099-17299346

-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 Augustus_model.g10979.t1
Valid prediction for snap_scaffold_6-snap.3659-T1
Valid prediction for snap_scaffold_6-snap.3646-T1
Valid prediction for Augustus_model.g10981.t1
Valid prediction for GlimmerHMM_glimmerT_16386-T1
Valid prediction for snap_scaffold_6-snap.3663-T1
Valid prediction for Augustus_model.g10972.t1
Valid prediction for GlimmerHMM_glimmerT_16391-T1
Valid prediction for snap_scaffold_6-snap.3639-T1
Valid prediction for GlimmerHMM_glimmerT_16376-T1
Valid prediction for Augustus_model.g10978.t1
Valid prediction for GlimmerHMM_glimmerT_16384-T1
Valid prediction for snap_scaffold_6-snap.3642-T1
Valid prediction for snap_scaffold_6-snap.3644-T1
Valid prediction for Augustus_model.g10977.t1
Valid prediction for snap_scaffold_6-snap.3627-T1
Valid prediction for Augustus_model.g10974.t1
Valid prediction for GlimmerHMM_glimmerT_16381-T1
Valid prediction for snap_scaffold_6-snap.3635-T1
Valid prediction for snap_scaffold_6-snap.3629-T1
Valid prediction for GlimmerHMM_glimmerT_16379-T1
Valid prediction for snap_scaffold_6-snap.3652-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g10980.t1
Valid prediction for snap_scaffold_6-snap.3637-T1
Couldn't classify 40523, 40571
Couldn't classify 41237, 41382
Sorry, prediction pasa_asmbl_47730.p1 fails validation.
(CTG)	 GG	40523-40571	GT	GAG
(AGC)	 AG	40667-40783	GC	AGG
(ATG)	 AG	41237-41382	CC	TCC
-recovered pasa_asmbl_47730.p1, internal, 40667, 40783
Couldn't classify 52581, 52754
Sorry, prediction pasa_asmbl_47736.p1 fails validation.
(TCC)	 GC	52581-52754	GT	TGG
(GTT)	 AG	52923-53065	GT	AGG
(GGT)	 AG	53147-53171	AG	AAA
-recovered pasa_asmbl_47736.p1, terminal, 53147, 53171
-recovered pasa_asmbl_47736.p1, internal, 52923, 53065
Valid prediction for GlimmerHMM_glimmerT_16375-T1
Valid prediction for GlimmerHMM_glimmerT_16377-T1
Valid prediction for snap_scaffold_6-snap.3648-T1
Valid prediction for GlimmerHMM_glimmerT_16388-T1
Valid prediction for Augustus_model.g10973.t1
Valid prediction for snap_scaffold_6-snap.3661-T1
Valid prediction for GlimmerHMM_glimmerT_16380-T1
Valid prediction for snap_scaffold_6-snap.3633-T1
Valid prediction for Augustus_model.g10971.t1
Valid prediction for Augustus_model.g10975.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 HiQ_model.g10976.t1
Valid prediction for Augustus_model.g10982.t1
Valid prediction for GlimmerHMM_glimmerT_16383-T1
Valid prediction for GlimmerHMM_glimmerT_16374-T1
Valid prediction for GlimmerHMM_glimmerT_16387-T1
Valid prediction for snap_scaffold_6-snap.3640-T1
Valid prediction for snap_scaffold_6-snap.3630-T1
Valid prediction for snap_scaffold_6-snap.3634-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.3649-T1
Valid prediction for pasa_asmbl_49181.p1
Valid prediction for GlimmerHMM_glimmerT_16373-T1
Valid prediction for snap_scaffold_6-snap.3628-T1
Valid prediction for snap_scaffold_6-snap.3631-T1
Valid prediction for snap_scaffold_6-snap.3662-T1
Valid prediction for snap_scaffold_6-snap.3643-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.3658-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.3641-T1
Valid prediction for snap_scaffold_6-snap.3650-T1
Valid prediction for Augustus_model.g10984.t1
Valid prediction for snap_scaffold_6-snap.3636-T1
Valid prediction for GlimmerHMM_glimmerT_16390-T1
Valid prediction for snap_scaffold_6-snap.3651-T1
Valid prediction for snap_scaffold_6-snap.3665-T1
Valid prediction for snap_scaffold_6-snap.3664-T1
Valid prediction for snap_scaffold_6-snap.3645-T1
Valid prediction for snap_scaffold_6-snap.3660-T1
Valid prediction for GlimmerHMM_glimmerT_16389-T1
Valid prediction for snap_scaffold_6-snap.3656-T1
Valid prediction for GlimmerHMM_glimmerT_16378-T1
Valid prediction for snap_scaffold_6-snap.3626-T1
Valid prediction for GlimmerHMM_glimmerT_16372-T1
Valid prediction for GlimmerHMM_glimmerT_16385-T1
Valid prediction for snap_scaffold_6-snap.3655-T1
Valid prediction for snap_scaffold_6-snap.3632-T1
Valid prediction for GlimmerHMM_glimmerT_16382-T1
Valid prediction for CodingQuarry_transcript_55398-T1
Valid prediction for CodingQuarry_transcript_55400-T1
Valid prediction for snap_scaffold_6-snap.3654-T1
Valid prediction for snap_scaffold_6-snap.3653-T1
Valid prediction for pasa_asmbl_49186.p1
Valid prediction for snap_scaffold_6-snap.3666-T1
Valid prediction for snap_scaffold_6-snap.3638-T1
Valid prediction for snap_scaffold_6-snap.3657-T1
Valid prediction for snap_scaffold_6-snap.3667-T1
Valid prediction for snap_scaffold_6-snap.3647-T1
Valid prediction for HiQ_model.g10983.t1
Valid prediction for GlimmerHMM_glimmerT_16392-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6709, rend_intergenic: 5459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10129, rend_intergenic: 6826  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35681, rend_intergenic: 12105  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45962, rend_intergenic: 41254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49712, rend_intergenic: 49015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62080, rend_intergenic: 56523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65294, rend_intergenic: 63195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77602, rend_intergenic: 69337  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81369, rend_intergenic: 77606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84006, rend_intergenic: 82359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92516, rend_intergenic: 90256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94460, rend_intergenic: 92516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104719, rend_intergenic: 94587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148633, rend_intergenic: 109584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153068, rend_intergenic: 150925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161509, rend_intergenic: 158011  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164228, rend_intergenic: 161557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 177248
-exon list size: 433


building trellis

0.2    
0.5    
0.7    
0.9    
1.1    
1.4    
1.6    
1.8    
2.1    
2.3    
2.5    
2.8    
3.0    
3.2    
3.4    
3.7    
3.9    
4.1    
4.4    
4.6    
4.8    
5.1    
5.3    
5.5    
5.7    
6.0    
6.2    
6.4    
6.7    
6.9    
7.1    
7.4    
7.6    
7.8    
8.0    
8.3    
8.5    
8.7    
9.0    
9.2    
9.4    
9.7    
9.9    
10.1    
10.3    
10.6    
10.8    
11.0    
11.3    
11.5    
11.7    
12.0    
12.2    
12.4    
12.6    
12.9    
13.1    
13.3    
13.6    
13.8    
14.0    
14.3    
14.5    
14.7    
14.9    
15.2    
15.4    
15.6    
15.9    
16.1    
16.3    
16.6    
16.8    
17.0    
17.2    
17.5    
17.7    
17.9    
18.2    
18.4    
18.6    
18.9    
19.1    
19.3    
19.5    
19.8    
20.0    
20.2    
20.5    
20.7    
20.9    
21.1    
21.4    
21.6    
21.8    
22.1    
22.3    
22.5    
22.8    
23.0    
23.2    
23.4    
23.7    
23.9    
24.1    
24.4    
24.6    
24.8    
25.1    
25.3    
25.5    
25.7    
26.0    
26.2    
26.4    
26.7    
26.9    
27.1    
27.4    
27.6    
27.8    
28.0    
28.3    
28.5    
28.7    
29.0    
29.2    
29.4    
29.7    
29.9    
30.1    
30.3    
30.6    
30.8    
31.0    
31.3    
31.5    
31.7    
32.0    
32.2    
32.4    
32.6    
32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.3    
34.5    
34.7    
34.9    
35.2    
35.4    
35.6    
35.9    
36.1    
36.3    
36.6    
36.8    
37.0    
37.2    
37.5    
37.7    
37.9    
38.2    
38.4    
38.6    
38.9    
39.1    
39.3    
39.5    
39.8    
40.0    
40.2    
40.5    
40.7    
40.9    
41.1    
41.4    
41.6    
41.8    
42.1    
42.3    
42.5    
42.8    
43.0    
43.2    
43.4    
43.7    
43.9    
44.1    
44.4    
44.6    
44.8    
45.1    
45.3    
45.5    
45.7    
46.0    
46.2    
46.4    
46.7    
46.9    
47.1    
47.4    
47.6    
47.8    
48.0    
48.3    
48.5    
48.7    
49.0    
49.2    
49.4    
49.7    
49.9    
50.1    
50.3    
50.6    
50.8    
51.0    
51.3    
51.5    
51.7    
52.0    
52.2    
52.4    
52.6    
52.9    
53.1    
53.3    
53.6    
53.8    
54.0    
54.3    
54.5    
54.7    
54.9    
55.2    
55.4    
55.6    
55.9    
56.1    
56.3    
56.6    
56.8    
57.0    
57.2    
57.5    
57.7    
57.9    
58.2    
58.4    
58.6    
58.9    
59.1    
59.3    
59.5    
59.8    
60.0    
60.2    
60.5    
60.7    
60.9    
61.1    
61.4    
61.6    
61.8    
62.1    
62.3    
62.5    
62.8    
63.0    
63.2    
63.4    
63.7    
63.9    
64.1    
64.4    
64.6    
64.8    
65.1    
65.3    
65.5    
65.7    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
67.4    
67.6    
67.8    
68.0    
68.3    
68.5    
68.7    
69.0    
69.2    
69.4    
69.7    
69.9    
70.1    
70.3    
70.6    
70.8    
71.0    
71.3    
71.5    
71.7    
72.0    
72.2    
72.4    
72.6    
72.9    
73.1    
73.3    
73.6    
73.8    
74.0    
74.3    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.9    
76.1    
76.3    
76.6    
76.8    
77.0    
77.2    
77.5    
77.7    
77.9    
78.2    
78.4    
78.6    
78.9    
79.1    
79.3    
79.5    
79.8    
80.0    
80.2    
80.5    
80.7    
80.9    
81.1    
81.4    
81.6    
81.8    
82.1    
82.3    
82.5    
82.8    
83.0    
83.2    
83.4    
83.7    
83.9    
84.1    
84.4    
84.6    
84.8    
85.1    
85.3    
85.5    
85.7    
86.0    
86.2    
86.4    
86.7    
86.9    
87.1    
87.4    
87.6    
87.8    
88.0    
88.3    
88.5    
88.7    
89.0    
89.2    
89.4    
89.7    
89.9    
90.1    
90.3    
90.6    
90.8    
91.0    
91.3    
91.5    
91.7    
92.0    
92.2    
92.4    
92.6    
92.9    
93.1    
93.3    
93.6    
93.8    
94.0    
94.3    
94.5    
94.7    
94.9    
95.2    
95.4    
95.6    
95.9    
96.1    
96.3    
96.6    
96.8    
97.0    
97.2    
97.5    
97.7    
97.9    
98.2    
98.4    
98.6    
98.9    
99.1    
99.3    
99.5    
99.8    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 6709, rend_intergenic: 5459  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10129, rend_intergenic: 6826  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35681, rend_intergenic: 12105  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45962, rend_intergenic: 41254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49712, rend_intergenic: 49015  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62080, rend_intergenic: 56523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65294, rend_intergenic: 63195  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77602, rend_intergenic: 69337  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81369, rend_intergenic: 77606  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84006, rend_intergenic: 82359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92516, rend_intergenic: 90256  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94460, rend_intergenic: 92516  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104719, rend_intergenic: 94587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148633, rend_intergenic: 109584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153068, rend_intergenic: 150925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161509, rend_intergenic: 158011  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164228, rend_intergenic: 161557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support