-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_25/scaffold_25_6617048-6752336

-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.g36072.t1
Valid prediction for GlimmerHMM_glimmerT_54353-T1
Valid prediction for GlimmerHMM_glimmerT_54334-T1
Valid prediction for snap_scaffold_25-snap.1391-T1
Valid prediction for snap_scaffold_25-snap.1415-T1
Valid prediction for Augustus_model.g36073.t1
Valid prediction for GlimmerHMM_glimmerT_54346-T1
Couldn't classify 125069, 125287
Couldn't classify 125429, 125524
Sorry, prediction pasa_asmbl_33638.p2 fails validation.
(GAG)	 CC	125069-125287	GT	AGG
(GAG)	 AG	125429-125524	GG	AAG
Valid prediction for snap_scaffold_25-snap.1385-T1
Valid prediction for snap_scaffold_25-snap.1390-T1
Valid prediction for snap_scaffold_25-snap.1410-T1
Valid prediction for Augustus_model.g36077.t1
Valid prediction for snap_scaffold_25-snap.1392-T1
Valid prediction for snap_scaffold_25-snap.1389-T1
Valid prediction for Augustus_model.g36076.t1
Couldn't classify 122638, 122762
Couldn't classify 123563, 123584
Sorry, prediction pasa_asmbl_33903.p1 fails validation.
(GAC)	 AC	122638-122762	GT	AAG
(ATT)	 AG	122937-123051	GT	CAG
(GAT)	 AG	123236-123429	GT	TGG
(GTA)	 AG	123563-123584	GG	ACG
-recovered pasa_asmbl_33903.p1, internal, 122937, 123051
-recovered pasa_asmbl_33903.p1, internal, 123236, 123429
Valid prediction for GlimmerHMM_glimmerT_54332-T1
Valid prediction for GlimmerHMM_glimmerT_54342-T1
Valid prediction for snap_scaffold_25-snap.1413-T1
Valid prediction for GlimmerHMM_glimmerT_54358-T1
Valid prediction for GlimmerHMM_glimmerT_54354-T1
Valid prediction for Augustus_model.g36079.t1
Valid prediction for snap_scaffold_25-snap.1374-T1
Valid prediction for snap_scaffold_25-snap.1381-T1
Valid prediction for snap_scaffold_25-snap.1411-T1
Valid prediction for snap_scaffold_25-snap.1405-T1
Valid prediction for GlimmerHMM_glimmerT_54359-T1
Valid prediction for Augustus_model.g36075.t1
Valid prediction for GlimmerHMM_glimmerT_54345-T1
Valid prediction for snap_scaffold_25-snap.1386-T1
Valid prediction for GlimmerHMM_glimmerT_54338-T1
Valid prediction for snap_scaffold_25-snap.1397-T1
Couldn't classify 128599, 128700
Sorry, prediction pasa_asmbl_33943.p1 fails validation.
(CCC)	 AC	128599-128700	GT	AGG
(CGC)	 AG	130492-130662	GT	TGG
(AGC)	 AG	130807-130926	GT	TGG
(ATG)	 AG	131065-131157	GT	TGG
(TCC)	 AG	131274-131414	CC	AGC
-recovered pasa_asmbl_33943.p1, initial, 131065, 131157
-recovered pasa_asmbl_33943.p1, terminal, 131274, 131414
-recovered pasa_asmbl_33943.p1, internal, 130492, 130662
-recovered pasa_asmbl_33943.p1, internal, 130807, 130926
-recovered pasa_asmbl_33943.p1, internal, 131065, 131157
Valid prediction for snap_scaffold_25-snap.1401-T1
Valid prediction for snap_scaffold_25-snap.1375-T1
Valid prediction for snap_scaffold_25-snap.1394-T1
Valid prediction for snap_scaffold_25-snap.1376-T1
Valid prediction for snap_scaffold_25-snap.1398-T1
Valid prediction for GlimmerHMM_glimmerT_54350-T1
Valid prediction for GlimmerHMM_glimmerT_54357-T1
Valid prediction for snap_scaffold_25-snap.1419-T1
Valid prediction for Augustus_model.g36071.t1
Valid prediction for GlimmerHMM_glimmerT_54328-T1
Valid prediction for snap_scaffold_25-snap.1377-T1
Valid prediction for Augustus_model.g36074.t1
Valid prediction for GlimmerHMM_glimmerT_54337-T1
Valid prediction for Augustus_model.g36078.t1
Valid prediction for snap_scaffold_25-snap.1402-T1
Valid prediction for snap_scaffold_25-snap.1403-T1
Valid prediction for Augustus_model.g36065.t1
Valid prediction for GlimmerHMM_glimmerT_54355-T1
Valid prediction for GlimmerHMM_glimmerT_54352-T1
Valid prediction for snap_scaffold_25-snap.1409-T1
Valid prediction for Augustus_model.g36068.t1
Valid prediction for GlimmerHMM_glimmerT_54347-T1
Valid prediction for GlimmerHMM_glimmerT_54349-T1
Valid prediction for snap_scaffold_25-snap.1382-T1
Valid prediction for Augustus_model.g36066.t1
Valid prediction for GlimmerHMM_glimmerT_54341-T1
Valid prediction for GlimmerHMM_glimmerT_54333-T1
Valid prediction for GlimmerHMM_glimmerT_54360-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 GlimmerHMM_glimmerT_54356-T1
Valid prediction for snap_scaffold_25-snap.1379-T1
Valid prediction for snap_scaffold_25-snap.1412-T1
Valid prediction for snap_scaffold_25-snap.1400-T1
Valid prediction for Augustus_model.g36069.t1
Valid prediction for snap_scaffold_25-snap.1417-T1
Valid prediction for snap_scaffold_25-snap.1407-T1
Valid prediction for snap_scaffold_25-snap.1380-T1
Valid prediction for Augustus_model.g36067.t1
Valid prediction for GlimmerHMM_glimmerT_54351-T1
Valid prediction for snap_scaffold_25-snap.1378-T1
Valid prediction for snap_scaffold_25-snap.1387-T1
Valid prediction for GlimmerHMM_glimmerT_54343-T1
Valid prediction for GlimmerHMM_glimmerT_54344-T1
Valid prediction for GlimmerHMM_glimmerT_54329-T1
Valid prediction for GlimmerHMM_glimmerT_54340-T1
Valid prediction for snap_scaffold_25-snap.1416-T1
Valid prediction for GlimmerHMM_glimmerT_54339-T1
Valid prediction for GlimmerHMM_glimmerT_54331-T1
Valid prediction for Augustus_model.g36070.t1
Valid prediction for snap_scaffold_25-snap.1399-T1
Valid prediction for snap_scaffold_25-snap.1406-T1
Valid prediction for snap_scaffold_25-snap.1388-T1
Valid prediction for snap_scaffold_25-snap.1420-T1
Valid prediction for snap_scaffold_25-snap.1396-T1
Valid prediction for snap_scaffold_25-snap.1383-T1
Valid prediction for snap_scaffold_25-snap.1404-T1
Valid prediction for snap_scaffold_25-snap.1418-T1
Valid prediction for snap_scaffold_25-snap.1421-T1
Valid prediction for snap_scaffold_25-snap.1393-T1
Valid prediction for GlimmerHMM_glimmerT_54336-T1
Valid prediction for snap_scaffold_25-snap.1414-T1
Valid prediction for GlimmerHMM_glimmerT_54348-T1
Valid prediction for snap_scaffold_25-snap.1395-T1
Valid prediction for snap_scaffold_25-snap.1384-T1
Valid prediction for GlimmerHMM_glimmerT_54335-T1
Valid prediction for snap_scaffold_25-snap.1408-T1
Valid prediction for GlimmerHMM_glimmerT_54330-T1
Valid prediction for Augustus_model.g36064.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9045, rend_intergenic: 8047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23440, rend_intergenic: 19732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34315, rend_intergenic: 27109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39985, rend_intergenic: 34552  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54278, rend_intergenic: 50641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66289, rend_intergenic: 62620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74662, rend_intergenic: 72545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90773, rend_intergenic: 84768  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105843, rend_intergenic: 100824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118942, rend_intergenic: 106294  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131414, rend_intergenic: 124287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 135289
-exon list size: 387


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.1    
2.3    
2.6    
2.8    
3.1    
3.3    
3.6    
3.9    
4.1    
4.4    
4.6    
4.9    
5.1    
5.4    
5.7    
5.9    
6.2    
6.4    
6.7    
6.9    
7.2    
7.5    
7.7    
8.0    
8.2    
8.5    
8.7    
9.0    
9.3    
9.5    
9.8    
10.0    
10.3    
10.5    
10.8    
11.1    
11.3    
11.6    
11.8    
12.1    
12.3    
12.6    
12.9    
13.1    
13.4    
13.6    
13.9    
14.1    
14.4    
14.7    
14.9    
15.2    
15.4    
15.7    
15.9    
16.2    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
18.0    
18.3    
18.5    
18.8    
19.0    
19.3    
19.5    
19.8    
20.1    
20.3    
20.6    
20.8    
21.1    
21.3    
21.6    
21.9    
22.1    
22.4    
22.6    
22.9    
23.1    
23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
26.0    
26.2    
26.5    
26.7    
27.0    
27.2    
27.5    
27.8    
28.0    
28.3    
28.5    
28.8    
29.0    
29.3    
29.6    
29.8    
30.1    
30.3    
30.6    
30.8    
31.1    
31.4    
31.6    
31.9    
32.1    
32.4    
32.6    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
35.0    
35.2    
35.5    
35.7    
36.0    
36.2    
36.5    
36.8    
37.0    
37.3    
37.5    
37.8    
38.0    
38.3    
38.6    
38.8    
39.1    
39.3    
39.6    
39.8    
40.1    
40.4    
40.6    
40.9    
41.1    
41.4    
41.6    
41.9    
42.2    
42.4    
42.7    
42.9    
43.2    
43.4    
43.7    
44.0    
44.2    
44.5    
44.7    
45.0    
45.2    
45.5    
45.8    
46.0    
46.3    
46.5    
46.8    
47.0    
47.3    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.2    
51.4    
51.7    
51.9    
52.2    
52.4    
52.7    
53.0    
53.2    
53.5    
53.7    
54.0    
54.2    
54.5    
54.8    
55.0    
55.3    
55.5    
55.8    
56.0    
56.3    
56.6    
56.8    
57.1    
57.3    
57.6    
57.8    
58.1    
58.4    
58.6    
58.9    
59.1    
59.4    
59.6    
59.9    
60.2    
60.4    
60.7    
60.9    
61.2    
61.4    
61.7    
62.0    
62.2    
62.5    
62.7    
63.0    
63.2    
63.5    
63.8    
64.0    
64.3    
64.5    
64.8    
65.0    
65.3    
65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.4    
67.6    
67.9    
68.1    
68.4    
68.6    
68.9    
69.2    
69.4    
69.7    
69.9    
70.2    
70.4    
70.7    
71.0    
71.2    
71.5    
71.7    
72.0    
72.2    
72.5    
72.8    
73.0    
73.3    
73.5    
73.8    
74.0    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.9    
77.1    
77.4    
77.6    
77.9    
78.1    
78.4    
78.7    
78.9    
79.2    
79.4    
79.7    
79.9    
80.2    
80.5    
80.7    
81.0    
81.2    
81.5    
81.7    
82.0    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.8    
84.1    
84.3    
84.6    
84.8    
85.1    
85.3    
85.6    
85.9    
86.1    
86.4    
86.6    
86.9    
87.1    
87.4    
87.7    
87.9    
88.2    
88.4    
88.7    
88.9    
89.2    
89.5    
89.7    
90.0    
90.2    
90.5    
90.7    
91.0    
91.3    
91.5    
91.8    
92.0    
92.3    
92.5    
92.8    
93.1    
93.3    
93.6    
93.8    
94.1    
94.3    
94.6    
94.9    
95.1    
95.4    
95.6    
95.9    
96.1    
96.4    
96.7    
96.9    
97.2    
97.4    
97.7    
97.9    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 9045, rend_intergenic: 8047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23440, rend_intergenic: 19732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34315, rend_intergenic: 27109  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39985, rend_intergenic: 34552  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54278, rend_intergenic: 50641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66289, rend_intergenic: 62620  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74662, rend_intergenic: 72545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90773, rend_intergenic: 84768  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105843, rend_intergenic: 100824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118942, rend_intergenic: 106294  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131414, rend_intergenic: 124287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 25 predictions persist after filtering for low support