-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_12446674-12661727

-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_39213-T1
Valid prediction for GlimmerHMM_glimmerT_39217-T1
Valid prediction for GlimmerHMM_glimmerT_39226-T1
Valid prediction for snap_scaffold_16-snap.2371-T1
Valid prediction for snap_scaffold_16-snap.2352-T1
Valid prediction for Augustus_model.g26185.t1
Valid prediction for GlimmerHMM_glimmerT_39225-T1
Valid prediction for Augustus_model.g26186.t1
Valid prediction for snap_scaffold_16-snap.2364-T1
Valid prediction for snap_scaffold_16-snap.2367-T1
Valid prediction for snap_scaffold_16-snap.2386-T1
Valid prediction for GlimmerHMM_glimmerT_39219-T1
Valid prediction for snap_scaffold_16-snap.2384-T1
Valid prediction for snap_scaffold_16-snap.2374-T1
Valid prediction for snap_scaffold_16-snap.2379-T1
Valid prediction for snap_scaffold_16-snap.2376-T1
Valid prediction for GlimmerHMM_glimmerT_39205-T1
Valid prediction for snap_scaffold_16-snap.2356-T1
Valid prediction for snap_scaffold_16-snap.2360-T1
Valid prediction for Augustus_model.g26191.t1
Valid prediction for snap_scaffold_16-snap.2373-T1
Couldn't classify 149777, 150916
Sorry, prediction pasa_asmbl_16640.p1 fails validation.
(CCG)	 TG	149777-150916	AA	GAA
Valid prediction for GlimmerHMM_glimmerT_39222-T1
Valid prediction for snap_scaffold_16-snap.2363-T1
Valid prediction for GlimmerHMM_glimmerT_39214-T1
Valid prediction for Augustus_model.g26192.t1
Couldn't classify 205610, 205771
Sorry, prediction pasa_asmbl_16641.p1 fails validation.
(ATG)	 CA	202887-203005	GT	TCG
(TGA)	 AG	203175-203277	GT	AGG
(AAG)	 AG	203375-203469	GT	AGG
(GTA)	 AG	203605-203710	GT	AGG
(CTG)	 AG	203879-203961	GT	AAG
(TGA)	 AG	204088-204184	GT	AGG
(TTT)	 AG	204372-204482	GT	AGG
(GTG)	 AG	205610-205771	GG	AGG
-recovered pasa_asmbl_16641.p1, initial, 202887, 203005
-recovered pasa_asmbl_16641.p1, internal, 203175, 203277
-recovered pasa_asmbl_16641.p1, internal, 203375, 203469
-recovered pasa_asmbl_16641.p1, internal, 203605, 203710
-recovered pasa_asmbl_16641.p1, internal, 203879, 203961
-recovered pasa_asmbl_16641.p1, internal, 204088, 204184
-recovered pasa_asmbl_16641.p1, internal, 204372, 204482
Valid prediction for snap_scaffold_16-snap.2354-T1
Valid prediction for GlimmerHMM_glimmerT_39210-T1
Valid prediction for GlimmerHMM_glimmerT_39221-T1
Valid prediction for snap_scaffold_16-snap.2388-T1
Valid prediction for GlimmerHMM_glimmerT_39209-T1
Valid prediction for snap_scaffold_16-snap.2383-T1
Valid prediction for snap_scaffold_16-snap.2357-T1
Valid prediction for GlimmerHMM_glimmerT_39215-T1
Valid prediction for GlimmerHMM_glimmerT_39212-T1
Couldn't classify 209593, 209847
Couldn't classify 210537, 210707
Sorry, prediction pasa_asmbl_16644.p1 fails validation.
(ACA)	 GA	209593-209847	GT	AGG
(GAG)	 AG	210537-210707	CT	TGC
Valid prediction for GlimmerHMM_glimmerT_39227-T1
Valid prediction for snap_scaffold_16-snap.2355-T1
Valid prediction for CodingQuarry_transcript_20116-T1
Valid prediction for GlimmerHMM_glimmerT_39207-T1
Valid prediction for Augustus_model.g26183.t1
Valid prediction for Augustus_model.g26181.t1
Valid prediction for snap_scaffold_16-snap.2368-T1
Valid prediction for snap_scaffold_16-snap.2381-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.g26190.t1
Valid prediction for GlimmerHMM_glimmerT_39224-T1
Valid prediction for snap_scaffold_16-snap.2365-T1
Valid prediction for snap_scaffold_16-snap.2382-T1
Valid prediction for snap_scaffold_16-snap.2361-T1
Valid prediction for GlimmerHMM_glimmerT_39223-T1
Valid prediction for snap_scaffold_16-snap.2350-T1
Valid prediction for GlimmerHMM_glimmerT_39216-T1
Valid prediction for snap_scaffold_16-snap.2372-T1
Valid prediction for Augustus_model.g26187.t1
Valid prediction for snap_scaffold_16-snap.2380-T1
Valid prediction for Augustus_model.g26184.t1
Valid prediction for Augustus_model.g26182.t1
Valid prediction for Augustus_model.g26189.t1
Valid prediction for snap_scaffold_16-snap.2385-T1
Valid prediction for snap_scaffold_16-snap.2366-T1
Valid prediction for snap_scaffold_16-snap.2349-T1
Valid prediction for snap_scaffold_16-snap.2353-T1
Valid prediction for snap_scaffold_16-snap.2358-T1
Valid prediction for snap_scaffold_16-snap.2387-T1
Valid prediction for snap_scaffold_16-snap.2351-T1
Valid prediction for CodingQuarry_transcript_20115-T1
Valid prediction for snap_scaffold_16-snap.2377-T1
Valid prediction for Augustus_model.g26188.t1
Valid prediction for snap_scaffold_16-snap.2378-T1
Valid prediction for GlimmerHMM_glimmerT_39211-T1
Valid prediction for GlimmerHMM_glimmerT_39204-T1
Valid prediction for GlimmerHMM_glimmerT_39206-T1
Valid prediction for snap_scaffold_16-snap.2389-T1
Valid prediction for GlimmerHMM_glimmerT_39218-T1
Valid prediction for snap_scaffold_16-snap.2359-T1
Valid prediction for GlimmerHMM_glimmerT_39220-T1
Valid prediction for GlimmerHMM_glimmerT_39208-T1
Valid prediction for pasa_asmbl_17398.p1
Valid prediction for snap_scaffold_16-snap.2362-T1
Valid prediction for snap_scaffold_16-snap.2375-T1
Valid prediction for snap_scaffold_16-snap.2369-T1
Valid prediction for snap_scaffold_16-snap.2370-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 30065, rend_intergenic: 23354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42580, rend_intergenic: 32368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50802, rend_intergenic: 43952  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75129, rend_intergenic: 74514  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117786, rend_intergenic: 111165  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140341, rend_intergenic: 138528  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146955, rend_intergenic: 142162  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165103, rend_intergenic: 163908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169263, rend_intergenic: 165997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170650, rend_intergenic: 169864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179477, rend_intergenic: 171945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184457, rend_intergenic: 180747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206194, rend_intergenic: 204339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207717, rend_intergenic: 206638  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211265, rend_intergenic: 209697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 215054
-exon list size: 279


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.8    
3.2    
3.6    
3.9    
4.3    
4.6    
5.0    
5.3    
5.7    
6.0    
6.4    
6.8    
7.1    
7.5    
7.8    
8.2    
8.5    
8.9    
9.3    
9.6    
10.0    
10.3    
10.7    
11.0    
11.4    
11.7    
12.1    
12.5    
12.8    
13.2    
13.5    
13.9    
14.2    
14.6    
14.9    
15.3    
15.7    
16.0    
16.4    
16.7    
17.1    
17.4    
17.8    
18.1    
18.5    
18.9    
19.2    
19.6    
19.9    
20.3    
20.6    
21.0    
21.4    
21.7    
22.1    
22.4    
22.8    
23.1    
23.5    
23.8    
24.2    
24.6    
24.9    
25.3    
25.6    
26.0    
26.3    
26.7    
27.0    
27.4    
27.8    
28.1    
28.5    
28.8    
29.2    
29.5    
29.9    
30.2    
30.6    
31.0    
31.3    
31.7    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.5    
34.9    
35.2    
35.6    
35.9    
36.3    
36.7    
37.0    
37.4    
37.7    
38.1    
38.4    
38.8    
39.1    
39.5    
39.9    
40.2    
40.6    
40.9    
41.3    
41.6    
42.0    
42.3    
42.7    
43.1    
43.4    
43.8    
44.1    
44.5    
44.8    
45.2    
45.6    
45.9    
46.3    
46.6    
47.0    
47.3    
47.7    
48.0    
48.4    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.6    
52.0    
52.3    
52.7    
53.0    
53.4    
53.7    
54.1    
54.4    
54.8    
55.2    
55.5    
55.9    
56.2    
56.6    
56.9    
57.3    
57.7    
58.0    
58.4    
58.7    
59.1    
59.4    
59.8    
60.1    
60.5    
60.9    
61.2    
61.6    
61.9    
62.3    
62.6    
63.0    
63.3    
63.7    
64.1    
64.4    
64.8    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.3    
68.7    
69.0    
69.4    
69.8    
70.1    
70.5    
70.8    
71.2    
71.5    
71.9    
72.2    
72.6    
73.0    
73.3    
73.7    
74.0    
74.4    
74.7    
75.1    
75.4    
75.8    
76.2    
76.5    
76.9    
77.2    
77.6    
77.9    
78.3    
78.6    
79.0    
79.4    
79.7    
80.1    
80.4    
80.8    
81.1    
81.5    
81.9    
82.2    
82.6    
82.9    
83.3    
83.6    
84.0    
84.3    
84.7    
85.1    
85.4    
85.8    
86.1    
86.5    
86.8    
87.2    
87.5    
87.9    
88.3    
88.6    
89.0    
89.3    
89.7    
90.0    
90.4    
90.7    
91.1    
91.5    
91.8    
92.2    
92.5    
92.9    
93.2    
93.6    
94.0    
94.3    
94.7    
95.0    
95.4    
95.7    
96.1    
96.4    
96.8    
97.2    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 30065, rend_intergenic: 23354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 42580, rend_intergenic: 32368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50802, rend_intergenic: 43952  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75129, rend_intergenic: 74514  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117786, rend_intergenic: 111165  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140341, rend_intergenic: 138528  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146955, rend_intergenic: 142162  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165103, rend_intergenic: 163908  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169263, rend_intergenic: 165997  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170650, rend_intergenic: 169864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179477, rend_intergenic: 171945  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184457, rend_intergenic: 180747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 206194, rend_intergenic: 204339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 207717, rend_intergenic: 206638  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 211265, rend_intergenic: 209697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support