-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_4524462-4692738

-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.g13059.t1
Valid prediction for snap_scaffold_8-snap.892-T1
Valid prediction for snap_scaffold_8-snap.888-T1
Valid prediction for snap_scaffold_8-snap.903-T1
Valid prediction for GlimmerHMM_glimmerT_19665-T1
Valid prediction for snap_scaffold_8-snap.918-T1
Valid prediction for snap_scaffold_8-snap.910-T1
Valid prediction for Augustus_model.g13067.t1
Valid prediction for Augustus_model.g13064.t1
Valid prediction for GlimmerHMM_glimmerT_19658-T1
Valid prediction for GlimmerHMM_glimmerT_19653-T1
Valid prediction for GlimmerHMM_glimmerT_19664-T1
Valid prediction for snap_scaffold_8-snap.897-T1
Valid prediction for GlimmerHMM_glimmerT_19673-T1
Valid prediction for GlimmerHMM_glimmerT_19654-T1
Valid prediction for Augustus_model.g13071.t1
Valid prediction for snap_scaffold_8-snap.889-T1
Valid prediction for snap_scaffold_8-snap.921-T1
Valid prediction for snap_scaffold_8-snap.906-T1
Valid prediction for GlimmerHMM_glimmerT_19659-T1
Valid prediction for GlimmerHMM_glimmerT_19666-T1
Valid prediction for snap_scaffold_8-snap.884-T1
Valid prediction for snap_scaffold_8-snap.893-T1
Valid prediction for snap_scaffold_8-snap.901-T1
Valid prediction for Augustus_model.g13058.t1
Valid prediction for GlimmerHMM_glimmerT_19670-T1
Valid prediction for GlimmerHMM_glimmerT_19674-T1
Valid prediction for snap_scaffold_8-snap.896-T1
Valid prediction for GlimmerHMM_glimmerT_19667-T1
Valid prediction for GlimmerHMM_glimmerT_19675-T1
Valid prediction for Augustus_model.g13070.t1
Valid prediction for snap_scaffold_8-snap.913-T1
Valid prediction for GlimmerHMM_glimmerT_19660-T1
Valid prediction for snap_scaffold_8-snap.885-T1
Valid prediction for snap_scaffold_8-snap.912-T1
Valid prediction for Augustus_model.g13068.t1
Valid prediction for Augustus_model.g13061.t1
Valid prediction for GlimmerHMM_glimmerT_19671-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_8-snap.883-T1
Valid prediction for Augustus_model.g13060.t1
Valid prediction for snap_scaffold_8-snap.898-T1
Valid prediction for snap_scaffold_8-snap.882-T1
Valid prediction for snap_scaffold_8-snap.917-T1
Valid prediction for snap_scaffold_8-snap.911-T1
Valid prediction for GlimmerHMM_glimmerT_19656-T1
Valid prediction for snap_scaffold_8-snap.900-T1
Valid prediction for Augustus_model.g13065.t1
Valid prediction for snap_scaffold_8-snap.920-T1
Valid prediction for GlimmerHMM_glimmerT_19668-T1
Valid prediction for snap_scaffold_8-snap.886-T1
Valid prediction for snap_scaffold_8-snap.891-T1
Valid prediction for GlimmerHMM_glimmerT_19672-T1
Valid prediction for Augustus_model.g13063.t1
Valid prediction for GlimmerHMM_glimmerT_19669-T1
Valid prediction for CodingQuarry_transcript_59632-T1
Valid prediction for Augustus_model.g13066.t1
Valid prediction for GlimmerHMM_glimmerT_19657-T1
Valid prediction for GlimmerHMM_glimmerT_19661-T1
Valid prediction for GlimmerHMM_glimmerT_19655-T1
Valid prediction for GlimmerHMM_glimmerT_19663-T1
Valid prediction for Augustus_model.g13069.t1
Valid prediction for snap_scaffold_8-snap.909-T1
Valid prediction for snap_scaffold_8-snap.902-T1
Valid prediction for snap_scaffold_8-snap.905-T1
Valid prediction for snap_scaffold_8-snap.915-T1
Valid prediction for snap_scaffold_8-snap.914-T1
Valid prediction for GlimmerHMM_glimmerT_19652-T1
Valid prediction for snap_scaffold_8-snap.887-T1
Valid prediction for snap_scaffold_8-snap.907-T1
Valid prediction for snap_scaffold_8-snap.916-T1
Couldn't classify 26899, 26977
Sorry, prediction pasa_asmbl_51786.p1 fails validation.
(GGA)	 GC	26899-26977	GT	AGG
(ACA)	 AG	27111-27206	GT	GGG
(GTG)	 AG	27695-27888	GT	ATG
(CTG)	 AG	27969-28020	GT	TGG
(GTC)	 AG	28163-28326	TA	AGT
-recovered pasa_asmbl_51786.p1, terminal, 28163, 28326
-recovered pasa_asmbl_51786.p1, internal, 27111, 27206
-recovered pasa_asmbl_51786.p1, internal, 27695, 27888
-recovered pasa_asmbl_51786.p1, internal, 27969, 28020
Valid prediction for snap_scaffold_8-snap.904-T1
Valid prediction for snap_scaffold_8-snap.899-T1
Valid prediction for snap_scaffold_8-snap.895-T1
Valid prediction for snap_scaffold_8-snap.908-T1
Valid prediction for GlimmerHMM_glimmerT_19662-T1
Valid prediction for Augustus_model.g13062.t1
Valid prediction for snap_scaffold_8-snap.894-T1
Valid prediction for snap_scaffold_8-snap.890-T1
Valid prediction for snap_scaffold_8-snap.922-T1
Couldn't classify 26746, 26786
Sorry, prediction pasa_asmbl_51789.p1 fails validation.
(ATG)	 TT	21784-21890	GT	ACG
(AGA)	 AG	22555-22763	GT	AGG
(TTG)	 AG	23555-23607	GT	GGG
(GGT)	 AG	24472-24479	GT	GGG
(TGT)	 AG	24587-24680	GT	AGG
(GAC)	 AG	24769-24960	GT	ACG
(CTG)	 AG	25082-25235	GT	CTG
(CAA)	 AG	25614-25663	GT	TTG
(GAT)	 AG	25756-25816	GT	AAG
(GGG)	 AG	26192-26293	GT	AGG
(GTA)	 AG	26746-26786	GG	GAG
-recovered pasa_asmbl_51789.p1, initial, 21784, 21890
-recovered pasa_asmbl_51789.p1, internal, 22555, 22763
-recovered pasa_asmbl_51789.p1, internal, 23555, 23607
-recovered pasa_asmbl_51789.p1, internal, 24472, 24479
-recovered pasa_asmbl_51789.p1, internal, 24587, 24680
-recovered pasa_asmbl_51789.p1, internal, 24769, 24960
-recovered pasa_asmbl_51789.p1, internal, 25082, 25235
-recovered pasa_asmbl_51789.p1, internal, 25614, 25663
-recovered pasa_asmbl_51789.p1, internal, 25756, 25816
-recovered pasa_asmbl_51789.p1, internal, 26192, 26293
Valid prediction for snap_scaffold_8-snap.919-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8838, rend_intergenic: 1983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23124, rend_intergenic: 18484  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32828, rend_intergenic: 27794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44222, rend_intergenic: 35321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52770, rend_intergenic: 44721  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60474, rend_intergenic: 55852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61075, rend_intergenic: 60735  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75642, rend_intergenic: 73003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77710, rend_intergenic: 75700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81998, rend_intergenic: 79628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107697, rend_intergenic: 94549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118345, rend_intergenic: 112199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126324, rend_intergenic: 121208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167593, rend_intergenic: 157003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 168277
-exon list size: 330


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.7    
13.0    
13.3    
13.6    
13.9    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.5    
17.8    
18.1    
18.4    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.5    
32.8    
33.1    
33.4    
33.7    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.3    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.7    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.3    
66.6    
66.9    
67.2    
67.5    
67.8    
68.1    
68.4    
68.7    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.6    
81.9    
82.2    
82.5    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 8838, rend_intergenic: 1983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23124, rend_intergenic: 18484  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32828, rend_intergenic: 27794  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44222, rend_intergenic: 35321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52770, rend_intergenic: 44721  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60474, rend_intergenic: 55852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61075, rend_intergenic: 60735  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75642, rend_intergenic: 73003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77710, rend_intergenic: 75700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81998, rend_intergenic: 79628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107697, rend_intergenic: 94549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118345, rend_intergenic: 112199  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126324, rend_intergenic: 121208  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 167593, rend_intergenic: 157003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support