-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_13/scaffold_13_12573331-12762947

-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_32559-T1
Valid prediction for Augustus_model.g21746.t1
Valid prediction for Augustus_model.g21747.t1
Valid prediction for GlimmerHMM_glimmerT_32563-T1
Valid prediction for snap_scaffold_13-snap.2382-T1
Valid prediction for Augustus_model.g21754.t1
Valid prediction for snap_scaffold_13-snap.2404-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_13-snap.2378-T1
Valid prediction for snap_scaffold_13-snap.2379-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g21751.t1
Valid prediction for snap_scaffold_13-snap.2373-T1
Valid prediction for GlimmerHMM_glimmerT_32565-T1
Couldn't classify 178101, 178212
Couldn't classify 180582, 180871
Sorry, prediction pasa_asmbl_11358.p2 fails validation.
(AGG)	 AC	178101-178212	GT	AGG
(GCT)	 AG	178886-179077	GT	AGG
(GTT)	 AG	179487-179644	GT	AGG
(GAG)	 AG	180129-180252	GT	CTG
(CTT)	 AG	180582-180871	TT	ACT
-recovered pasa_asmbl_11358.p2, internal, 178886, 179077
-recovered pasa_asmbl_11358.p2, internal, 179487, 179644
-recovered pasa_asmbl_11358.p2, internal, 180129, 180252
Valid prediction for Augustus_model.g21753.t1
Valid prediction for snap_scaffold_13-snap.2399-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_32546-T1
Valid prediction for Augustus_model.g21745.t1
Couldn't classify 152581, 152688
Couldn't classify 154078, 154110
Sorry, prediction pasa_asmbl_11356.p1 fails validation.
(ACG)	 GA	152581-152688	GT	AGG
(GCG)	 AG	153323-153469	GC	AGG
(GTC)	 AG	153673-153773	GT	AAG
(GGA)	 AG	153860-153926	GT	AGG
(AAA)	 AG	154078-154110	AG	AGA
-recovered pasa_asmbl_11356.p1, internal, 153323, 153469
-recovered pasa_asmbl_11356.p1, internal, 153673, 153773
-recovered pasa_asmbl_11356.p1, internal, 153860, 153926
Valid prediction for snap_scaffold_13-snap.2393-T1
Valid prediction for Augustus_model.g21752.t1
Valid prediction for GlimmerHMM_glimmerT_32560-T1
Valid prediction for pasa_asmbl_11658.p1
Valid prediction for Augustus_model.g21755.t1
Valid prediction for Augustus_model.g21756.t1
Valid prediction for snap_scaffold_13-snap.2374-T1
Valid prediction for GlimmerHMM_glimmerT_32561-T1
Valid prediction for snap_scaffold_13-snap.2375-T1
Valid prediction for GlimmerHMM_glimmerT_32545-T1
Valid prediction for snap_scaffold_13-snap.2388-T1
Valid prediction for snap_scaffold_13-snap.2376-T1
Valid prediction for snap_scaffold_13-snap.2377-T1
Valid prediction for GlimmerHMM_glimmerT_32548-T1
Valid prediction for GlimmerHMM_glimmerT_32547-T1
Valid prediction for snap_scaffold_13-snap.2397-T1
Valid prediction for GlimmerHMM_glimmerT_32553-T1
Valid prediction for snap_scaffold_13-snap.2383-T1
Valid prediction for GlimmerHMM_glimmerT_32554-T1
Valid prediction for GlimmerHMM_glimmerT_32557-T1
Valid prediction for snap_scaffold_13-snap.2390-T1
Valid prediction for GlimmerHMM_glimmerT_32555-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_13-snap.2394-T1
Valid prediction for Augustus_model.g21749.t1
Valid prediction for snap_scaffold_13-snap.2387-T1
Valid prediction for GlimmerHMM_glimmerT_32564-T1
Valid prediction for snap_scaffold_13-snap.2396-T1
Valid prediction for snap_scaffold_13-snap.2385-T1
Valid prediction for snap_scaffold_13-snap.2381-T1
Valid prediction for GlimmerHMM_glimmerT_32549-T1
Valid prediction for snap_scaffold_13-snap.2371-T1
Valid prediction for snap_scaffold_13-snap.2392-T1
Valid prediction for Augustus_model.g21744.t1
Valid prediction for Augustus_model.g21748.t1
Valid prediction for Augustus_model.g21750.t1
Valid prediction for snap_scaffold_13-snap.2395-T1
Valid prediction for GlimmerHMM_glimmerT_32552-T1
Valid prediction for GlimmerHMM_glimmerT_32544-T1
Valid prediction for snap_scaffold_13-snap.2384-T1
Valid prediction for snap_scaffold_13-snap.2386-T1
Valid prediction for GlimmerHMM_glimmerT_32551-T1
Valid prediction for snap_scaffold_13-snap.2400-T1
Valid prediction for snap_scaffold_13-snap.2405-T1
Valid prediction for snap_scaffold_13-snap.2402-T1
Valid prediction for GlimmerHMM_glimmerT_32562-T1
Valid prediction for snap_scaffold_13-snap.2380-T1
Valid prediction for GlimmerHMM_glimmerT_32550-T1
Valid prediction for GlimmerHMM_glimmerT_32556-T1
Valid prediction for snap_scaffold_13-snap.2372-T1
Valid prediction for snap_scaffold_13-snap.2398-T1
Valid prediction for snap_scaffold_13-snap.2391-T1
Valid prediction for snap_scaffold_13-snap.2403-T1
Valid prediction for GlimmerHMM_glimmerT_32558-T1
Valid prediction for snap_scaffold_13-snap.2389-T1
Valid prediction for snap_scaffold_13-snap.2401-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 46844, rend_intergenic: 43138  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100939, rend_intergenic: 96071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113002, rend_intergenic: 110008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123624, rend_intergenic: 121744  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168738, rend_intergenic: 147242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171957, rend_intergenic: 169518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184987, rend_intergenic: 177697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 189617
-exon list size: 271


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.6    
2.9    
3.3    
3.7    
4.0    
4.4    
4.8    
5.1    
5.5    
5.9    
6.2    
6.6    
7.0    
7.3    
7.7    
8.1    
8.4    
8.8    
9.2    
9.5    
9.9    
10.3    
10.6    
11.0    
11.4    
11.7    
12.1    
12.5    
12.8    
13.2    
13.6    
13.9    
14.3    
14.7    
15.0    
15.4    
15.8    
16.1    
16.5    
16.8    
17.2    
17.6    
17.9    
18.3    
18.7    
19.0    
19.4    
19.8    
20.1    
20.5    
20.9    
21.2    
21.6    
22.0    
22.3    
22.7    
23.1    
23.4    
23.8    
24.2    
24.5    
24.9    
25.3    
25.6    
26.0    
26.4    
26.7    
27.1    
27.5    
27.8    
28.2    
28.6    
28.9    
29.3    
29.7    
30.0    
30.4    
30.8    
31.1    
31.5    
31.9    
32.2    
32.6    
33.0    
33.3    
33.7    
34.1    
34.4    
34.8    
35.2    
35.5    
35.9    
36.3    
36.6    
37.0    
37.4    
37.7    
38.1    
38.5    
38.8    
39.2    
39.6    
39.9    
40.3    
40.7    
41.0    
41.4    
41.8    
42.1    
42.5    
42.9    
43.2    
43.6    
44.0    
44.3    
44.7    
45.1    
45.4    
45.8    
46.2    
46.5    
46.9    
47.3    
47.6    
48.0    
48.4    
48.7    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.3    
51.6    
52.0    
52.4    
52.7    
53.1    
53.5    
53.8    
54.2    
54.6    
54.9    
55.3    
55.7    
56.0    
56.4    
56.8    
57.1    
57.5    
57.9    
58.2    
58.6    
59.0    
59.3    
59.7    
60.1    
60.4    
60.8    
61.2    
61.5    
61.9    
62.3    
62.6    
63.0    
63.4    
63.7    
64.1    
64.5    
64.8    
65.2    
65.6    
65.9    
66.3    
66.7    
67.0    
67.4    
67.8    
68.1    
68.5    
68.9    
69.2    
69.6    
70.0    
70.3    
70.7    
71.1    
71.4    
71.8    
72.2    
72.5    
72.9    
73.3    
73.6    
74.0    
74.4    
74.7    
75.1    
75.5    
75.8    
76.2    
76.6    
76.9    
77.3    
77.7    
78.0    
78.4    
78.8    
79.1    
79.5    
79.9    
80.2    
80.6    
81.0    
81.3    
81.7    
82.1    
82.4    
82.8    
83.2    
83.5    
83.9    
84.2    
84.6    
85.0    
85.3    
85.7    
86.1    
86.4    
86.8    
87.2    
87.5    
87.9    
88.3    
88.6    
89.0    
89.4    
89.7    
90.1    
90.5    
90.8    
91.2    
91.6    
91.9    
92.3    
92.7    
93.0    
93.4    
93.8    
94.1    
94.5    
94.9    
95.2    
95.6    
96.0    
96.3    
96.7    
97.1    
97.4    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 46844, rend_intergenic: 43138  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100939, rend_intergenic: 96071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113002, rend_intergenic: 110008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123624, rend_intergenic: 121744  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168738, rend_intergenic: 147242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171957, rend_intergenic: 169518  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184987, rend_intergenic: 177697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support