-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_5455058-5611353

-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.g38002.t1
Couldn't classify 116780, 117001
Couldn't classify 117423, 117539
Sorry, prediction pasa_asmbl_36344.p1 fails validation.
(AAC)	 AG	116780-117001	GT	TGG
(GTG)	 AG	117423-117539	GT	AGG
-recovered pasa_asmbl_36344.p1, internal, 116780, 117001
-recovered pasa_asmbl_36344.p1, internal, 117423, 117539
Valid prediction for snap_scaffold_27-snap.1312-T1
Valid prediction for Augustus_model.g38009.t1
Valid prediction for GlimmerHMM_glimmerT_57355-T1
Valid prediction for GlimmerHMM_glimmerT_57352-T1
Valid prediction for snap_scaffold_27-snap.1300-T1
Valid prediction for Augustus_model.g38005.t1
Valid prediction for snap_scaffold_27-snap.1315-T1
Valid prediction for Augustus_model.g37999.t1
Valid prediction for snap_scaffold_27-snap.1297-T1
Valid prediction for Augustus_model.g38003.t1
Valid prediction for GlimmerHMM_glimmerT_57340-T1
Valid prediction for snap_scaffold_27-snap.1304-T1
Valid prediction for pasa_asmbl_36346.p1
Valid prediction for GlimmerHMM_glimmerT_57347-T1
Valid prediction for snap_scaffold_27-snap.1318-T1
Valid prediction for GlimmerHMM_glimmerT_57351-T1
Valid prediction for Augustus_model.g38001.t1
Valid prediction for GlimmerHMM_glimmerT_57353-T1
Valid prediction for Augustus_model.g38000.t1
Valid prediction for Augustus_model.g38004.t1
Valid prediction for GlimmerHMM_glimmerT_57354-T1
Valid prediction for snap_scaffold_27-snap.1289-T1
Valid prediction for snap_scaffold_27-snap.1287-T1
Valid prediction for snap_scaffold_27-snap.1285-T1
Valid prediction for GlimmerHMM_glimmerT_57350-T1
Valid prediction for snap_scaffold_27-snap.1298-T1
Valid prediction for HiQ_model.g38006.t1
Valid prediction for GlimmerHMM_glimmerT_57343-T1
Valid prediction for snap_scaffold_27-snap.1305-T1
Valid prediction for snap_scaffold_27-snap.1301-T1
Valid prediction for snap_scaffold_27-snap.1319-T1
Valid prediction for GlimmerHMM_glimmerT_57342-T1
Valid prediction for GlimmerHMM_glimmerT_57345-T1
Valid prediction for CodingQuarry_transcript_41896-T1
Valid prediction for snap_scaffold_27-snap.1286-T1
Valid prediction for snap_scaffold_27-snap.1307-T1
Valid prediction for GlimmerHMM_glimmerT_57346-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_27-snap.1302-T1
Valid prediction for snap_scaffold_27-snap.1313-T1
Valid prediction for GlimmerHMM_glimmerT_57341-T1
Valid prediction for GlimmerHMM_glimmerT_57356-T1
Valid prediction for GlimmerHMM_glimmerT_57357-T1
Valid prediction for snap_scaffold_27-snap.1296-T1
Valid prediction for GlimmerHMM_glimmerT_57358-T1
Valid prediction for snap_scaffold_27-snap.1282-T1
Valid prediction for snap_scaffold_27-snap.1320-T1
Valid prediction for GlimmerHMM_glimmerT_57344-T1
Valid prediction for Augustus_model.g38007.t1
Valid prediction for snap_scaffold_27-snap.1317-T1
Valid prediction for snap_scaffold_27-snap.1311-T1
Valid prediction for GlimmerHMM_glimmerT_57349-T1
Valid prediction for snap_scaffold_27-snap.1314-T1
Valid prediction for snap_scaffold_27-snap.1290-T1
Valid prediction for snap_scaffold_27-snap.1310-T1
Valid prediction for GlimmerHMM_glimmerT_57348-T1
Valid prediction for snap_scaffold_27-snap.1299-T1
Valid prediction for snap_scaffold_27-snap.1308-T1
Valid prediction for snap_scaffold_27-snap.1284-T1
Valid prediction for Augustus_model.g37998.t1
Valid prediction for Augustus_model.g37997.t1
Valid prediction for snap_scaffold_27-snap.1293-T1
Valid prediction for snap_scaffold_27-snap.1283-T1
Valid prediction for snap_scaffold_27-snap.1316-T1
Valid prediction for snap_scaffold_27-snap.1295-T1
Valid prediction for snap_scaffold_27-snap.1291-T1
Valid prediction for snap_scaffold_27-snap.1292-T1
Valid prediction for snap_scaffold_27-snap.1309-T1
Valid prediction for snap_scaffold_27-snap.1306-T1
Valid prediction for snap_scaffold_27-snap.1294-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g38008.t1
Valid prediction for snap_scaffold_27-snap.1288-T1
Valid prediction for snap_scaffold_27-snap.1303-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15954, rend_intergenic: 8062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20262, rend_intergenic: 18904  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48331, rend_intergenic: 20583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66959, rend_intergenic: 57281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76271, rend_intergenic: 70819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88377, rend_intergenic: 77523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92559, rend_intergenic: 89869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104405, rend_intergenic: 93613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121616, rend_intergenic: 104672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129131, rend_intergenic: 126146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140715, rend_intergenic: 136722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152844, rend_intergenic: 151297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156296
-exon list size: 273


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.5    
2.9    
3.3    
3.6    
4.0    
4.4    
4.7    
5.1    
5.5    
5.8    
6.2    
6.5    
6.9    
7.3    
7.6    
8.0    
8.4    
8.7    
9.1    
9.5    
9.8    
10.2    
10.5    
10.9    
11.3    
11.6    
12.0    
12.4    
12.7    
13.1    
13.5    
13.8    
14.2    
14.5    
14.9    
15.3    
15.6    
16.0    
16.4    
16.7    
17.1    
17.5    
17.8    
18.2    
18.5    
18.9    
19.3    
19.6    
20.0    
20.4    
20.7    
21.1    
21.5    
21.8    
22.2    
22.5    
22.9    
23.3    
23.6    
24.0    
24.4    
24.7    
25.1    
25.5    
25.8    
26.2    
26.5    
26.9    
27.3    
27.6    
28.0    
28.4    
28.7    
29.1    
29.5    
29.8    
30.2    
30.5    
30.9    
31.3    
31.6    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.5    
34.9    
35.3    
35.6    
36.0    
36.4    
36.7    
37.1    
37.5    
37.8    
38.2    
38.5    
38.9    
39.3    
39.6    
40.0    
40.4    
40.7    
41.1    
41.5    
41.8    
42.2    
42.5    
42.9    
43.3    
43.6    
44.0    
44.4    
44.7    
45.1    
45.5    
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    
54.5    
54.9    
55.3    
55.6    
56.0    
56.4    
56.7    
57.1    
57.5    
57.8    
58.2    
58.5    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.5    
61.8    
62.2    
62.5    
62.9    
63.3    
63.6    
64.0    
64.4    
64.7    
65.1    
65.5    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.4    
68.7    
69.1    
69.5    
69.8    
70.2    
70.5    
70.9    
71.3    
71.6    
72.0    
72.4    
72.7    
73.1    
73.5    
73.8    
74.2    
74.5    
74.9    
75.3    
75.6    
76.0    
76.4    
76.7    
77.1    
77.5    
77.8    
78.2    
78.5    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.5    
81.8    
82.2    
82.5    
82.9    
83.3    
83.6    
84.0    
84.4    
84.7    
85.1    
85.5    
85.8    
86.2    
86.5    
86.9    
87.3    
87.6    
88.0    
88.4    
88.7    
89.1    
89.5    
89.8    
90.2    
90.5    
90.9    
91.3    
91.6    
92.0    
92.4    
92.7    
93.1    
93.5    
93.8    
94.2    
94.5    
94.9    
95.3    
95.6    
96.0    
96.4    
96.7    
97.1    
97.5    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 15954, rend_intergenic: 8062  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20262, rend_intergenic: 18904  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48331, rend_intergenic: 20583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66959, rend_intergenic: 57281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76271, rend_intergenic: 70819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88377, rend_intergenic: 77523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92559, rend_intergenic: 89869  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104405, rend_intergenic: 93613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121616, rend_intergenic: 104672  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129131, rend_intergenic: 126146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140715, rend_intergenic: 136722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152844, rend_intergenic: 151297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support