-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_5392676-5529401

-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.g26848.t1
Valid prediction for GlimmerHMM_glimmerT_40317-T1
Valid prediction for GlimmerHMM_glimmerT_40302-T1
Valid prediction for Augustus_model.g26853.t1
Valid prediction for GlimmerHMM_glimmerT_40299-T1
Couldn't classify 53247, 53367
Sorry, prediction pasa_asmbl_18823.p1 fails validation.
(GTG)	 CG	53247-53367	GT	AGG
(ACA)	 AG	53675-53795	GT	AGG
(TTC)	 AG	54280-54616	AC	AGA
-recovered pasa_asmbl_18823.p1, terminal, 54280, 54616
-recovered pasa_asmbl_18823.p1, internal, 53675, 53795
Valid prediction for snap_scaffold_17-snap.1120-T1
Valid prediction for GlimmerHMM_glimmerT_40297-T1
Valid prediction for GlimmerHMM_glimmerT_40312-T1
Valid prediction for GlimmerHMM_glimmerT_40305-T1
Valid prediction for snap_scaffold_17-snap.1138-T1
Valid prediction for GlimmerHMM_glimmerT_40310-T1
Valid prediction for GlimmerHMM_glimmerT_40304-T1
Valid prediction for snap_scaffold_17-snap.1135-T1
Valid prediction for Augustus_model.g26856.t1
Valid prediction for snap_scaffold_17-snap.1116-T1
Valid prediction for snap_scaffold_17-snap.1119-T1
Valid prediction for snap_scaffold_17-snap.1110-T1
Valid prediction for snap_scaffold_17-snap.1132-T1
Valid prediction for Augustus_model.g26852.t1
Valid prediction for snap_scaffold_17-snap.1139-T1
Valid prediction for Augustus_model.g26857.t1
Valid prediction for GlimmerHMM_glimmerT_40311-T1
Valid prediction for snap_scaffold_17-snap.1118-T1
Valid prediction for snap_scaffold_17-snap.1130-T1
Valid prediction for GlimmerHMM_glimmerT_40308-T1
Couldn't classify 36841, 36918
Sorry, prediction pasa_asmbl_18822.p1 fails validation.
(GGT)	 CA	36841-36918	GT	AGG
(CCA)	 AG	38383-38661	TT	GAT
-recovered pasa_asmbl_18822.p1, terminal, 38383, 38661
Valid prediction for snap_scaffold_17-snap.1133-T1
Valid prediction for Augustus_model.g26860.t1
Valid prediction for snap_scaffold_17-snap.1127-T1
Valid prediction for snap_scaffold_17-snap.1126-T1
Valid prediction for Augustus_model.g26851.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_17-snap.1123-T1
Valid prediction for snap_scaffold_17-snap.1122-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g26861.t1
Valid prediction for snap_scaffold_17-snap.1141-T1
Valid prediction for GlimmerHMM_glimmerT_40307-T1
Valid prediction for snap_scaffold_17-snap.1112-T1
Valid prediction for Augustus_model.g26855.t1
Valid prediction for snap_scaffold_17-snap.1117-T1
Valid prediction for Augustus_model.g26859.t1
Valid prediction for GlimmerHMM_glimmerT_40313-T1
Valid prediction for GlimmerHMM_glimmerT_40318-T1
Couldn't classify 35812, 35907
Couldn't classify 40046, 40196
Sorry, prediction pasa_asmbl_17939.p1 fails validation.
(CTC)	 AG	35812-35907	GT	AGG
(AAA)	 AG	38419-38525	GT	AGG
(CTG)	 AG	38878-39009	GT	TGG
(GCA)	 AG	40046-40196	GT	AGG
-recovered pasa_asmbl_17939.p1, internal, 35812, 35907
-recovered pasa_asmbl_17939.p1, internal, 38419, 38525
-recovered pasa_asmbl_17939.p1, internal, 38878, 39009
-recovered pasa_asmbl_17939.p1, internal, 40046, 40196
Valid prediction for snap_scaffold_17-snap.1109-T1
Valid prediction for GlimmerHMM_glimmerT_40298-T1
Valid prediction for snap_scaffold_17-snap.1115-T1
Valid prediction for GlimmerHMM_glimmerT_40316-T1
Valid prediction for snap_scaffold_17-snap.1113-T1
Valid prediction for snap_scaffold_17-snap.1125-T1
Valid prediction for Augustus_model.g26858.t1
Valid prediction for HiQ_model.g26850.t1
Valid prediction for snap_scaffold_17-snap.1136-T1
Valid prediction for GlimmerHMM_glimmerT_40314-T1
Valid prediction for snap_scaffold_17-snap.1129-T1
Valid prediction for Augustus_model.g26847.t1
Valid prediction for snap_scaffold_17-snap.1128-T1
Valid prediction for GlimmerHMM_glimmerT_40300-T1
Valid prediction for snap_scaffold_17-snap.1121-T1
Valid prediction for snap_scaffold_17-snap.1134-T1
Valid prediction for GlimmerHMM_glimmerT_40303-T1
Valid prediction for snap_scaffold_17-snap.1111-T1
Valid prediction for snap_scaffold_17-snap.1137-T1
Valid prediction for snap_scaffold_17-snap.1140-T1
Couldn't classify 104802, 104837
Sorry, prediction pasa_asmbl_17935.p1 fails validation.
(AAC)	 TC	104802-104837	GT	AGG
(GTA)	 AG	105281-105355	GT	CTG
(CTT)	 AG	105553-105664	GT	TGG
(ATC)	 AG	105750-105829	TG	GAT
-recovered pasa_asmbl_17935.p1, terminal, 105750, 105829
-recovered pasa_asmbl_17935.p1, internal, 105281, 105355
-recovered pasa_asmbl_17935.p1, internal, 105553, 105664
Valid prediction for snap_scaffold_17-snap.1124-T1
Valid prediction for GlimmerHMM_glimmerT_40306-T1
Couldn't classify 22449, 22721
Couldn't classify 23155, 23292
Sorry, prediction pasa_asmbl_17941.p1 fails validation.
(AAC)	 AC	22449-22721	GT	AGG
(GAC)	 AG	23155-23292	GA	ACG
Valid prediction for GlimmerHMM_glimmerT_40309-T1
Valid prediction for snap_scaffold_17-snap.1114-T1
Valid prediction for CodingQuarry_transcript_21984-T1
Valid prediction for Augustus_model.g26854.t1
Couldn't classify 21009, 21123
Couldn't classify 22045, 22271
Sorry, prediction pasa_asmbl_17942.p1 fails validation.
(GAC)	 TG	21009-21123	GT	AGG
(GTT)	 AG	22045-22271	GA	GCG
Valid prediction for Augustus_model.g26849.t1
Valid prediction for GlimmerHMM_glimmerT_40301-T1
Valid prediction for GlimmerHMM_glimmerT_40315-T1
Valid prediction for snap_scaffold_17-snap.1131-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 54616, rend_intergenic: 48881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92295, rend_intergenic: 90215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93708, rend_intergenic: 92793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100513, rend_intergenic: 94344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112651, rend_intergenic: 110068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115739, rend_intergenic: 114996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 136726
-exon list size: 267


building trellis

0.4    
0.7    
1.1    
1.5    
1.9    
2.2    
2.6    
3.0    
3.3    
3.7    
4.1    
4.5    
4.8    
5.2    
5.6    
5.9    
6.3    
6.7    
7.1    
7.4    
7.8    
8.2    
8.6    
8.9    
9.3    
9.7    
10.0    
10.4    
10.8    
11.2    
11.5    
11.9    
12.3    
12.6    
13.0    
13.4    
13.8    
14.1    
14.5    
14.9    
15.2    
15.6    
16.0    
16.4    
16.7    
17.1    
17.5    
17.8    
18.2    
18.6    
19.0    
19.3    
19.7    
20.1    
20.4    
20.8    
21.2    
21.6    
21.9    
22.3    
22.7    
23.0    
23.4    
23.8    
24.2    
24.5    
24.9    
25.3    
25.7    
26.0    
26.4    
26.8    
27.1    
27.5    
27.9    
28.3    
28.6    
29.0    
29.4    
29.7    
30.1    
30.5    
30.9    
31.2    
31.6    
32.0    
32.3    
32.7    
33.1    
33.5    
33.8    
34.2    
34.6    
34.9    
35.3    
35.7    
36.1    
36.4    
36.8    
37.2    
37.5    
37.9    
38.3    
38.7    
39.0    
39.4    
39.8    
40.1    
40.5    
40.9    
41.3    
41.6    
42.0    
42.4    
42.8    
43.1    
43.5    
43.9    
44.2    
44.6    
45.0    
45.4    
45.7    
46.1    
46.5    
46.8    
47.2    
47.6    
48.0    
48.3    
48.7    
49.1    
49.4    
49.8    
50.2    
50.6    
50.9    
51.3    
51.7    
52.0    
52.4    
52.8    
53.2    
53.5    
53.9    
54.3    
54.6    
55.0    
55.4    
55.8    
56.1    
56.5    
56.9    
57.2    
57.6    
58.0    
58.4    
58.7    
59.1    
59.5    
59.9    
60.2    
60.6    
61.0    
61.3    
61.7    
62.1    
62.5    
62.8    
63.2    
63.6    
63.9    
64.3    
64.7    
65.1    
65.4    
65.8    
66.2    
66.5    
66.9    
67.3    
67.7    
68.0    
68.4    
68.8    
69.1    
69.5    
69.9    
70.3    
70.6    
71.0    
71.4    
71.7    
72.1    
72.5    
72.9    
73.2    
73.6    
74.0    
74.3    
74.7    
75.1    
75.5    
75.8    
76.2    
76.6    
77.0    
77.3    
77.7    
78.1    
78.4    
78.8    
79.2    
79.6    
79.9    
80.3    
80.7    
81.0    
81.4    
81.8    
82.2    
82.5    
82.9    
83.3    
83.6    
84.0    
84.4    
84.8    
85.1    
85.5    
85.9    
86.2    
86.6    
87.0    
87.4    
87.7    
88.1    
88.5    
88.8    
89.2    
89.6    
90.0    
90.3    
90.7    
91.1    
91.4    
91.8    
92.2    
92.6    
92.9    
93.3    
93.7    
94.1    
94.4    
94.8    
95.2    
95.5    
95.9    
96.3    
96.7    
97.0    
97.4    
97.8    
98.1    
98.5    
98.9    
99.3    
99.6    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 54616, rend_intergenic: 48881  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92295, rend_intergenic: 90215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93708, rend_intergenic: 92793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100513, rend_intergenic: 94344  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112651, rend_intergenic: 110068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 115739, rend_intergenic: 114996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support