-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_8772194-8946022

-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_51529-T1
Valid prediction for snap_scaffold_23-snap.1697-T1
Valid prediction for snap_scaffold_23-snap.1690-T1
Couldn't classify 67232, 68650
Sorry, prediction pasa_asmbl_31786.p1 fails validation.
(TAC)	 CC	67232-68650	AT	GGA
Valid prediction for snap_scaffold_23-snap.1705-T1
Valid prediction for GlimmerHMM_glimmerT_51508-T1
Valid prediction for snap_scaffold_23-snap.1687-T1
Valid prediction for snap_scaffold_23-snap.1684-T1
Valid prediction for GlimmerHMM_glimmerT_51520-T1
Valid prediction for snap_scaffold_23-snap.1691-T1
Valid prediction for Augustus_model.g34454.t1
Valid prediction for Augustus_model.g34456.t1
Valid prediction for snap_scaffold_23-snap.1718-T1
Valid prediction for GlimmerHMM_glimmerT_51517-T1
Valid prediction for snap_scaffold_23-snap.1710-T1
Valid prediction for Augustus_model.g34461.t1
Valid prediction for pasa_asmbl_31782.p1
Valid prediction for Augustus_model.g34458.t1
Valid prediction for Augustus_model.g34452.t1
Valid prediction for Augustus_model.g34463.t1
Valid prediction for GlimmerHMM_glimmerT_51525-T1
Valid prediction for GlimmerHMM_glimmerT_51535-T1
Valid prediction for GlimmerHMM_glimmerT_51519-T1
Valid prediction for Augustus_model.g34459.t1
Valid prediction for GlimmerHMM_glimmerT_51530-T1
Valid prediction for GlimmerHMM_glimmerT_51510-T1
Valid prediction for Augustus_model.g34460.t1
Valid prediction for GlimmerHMM_glimmerT_51512-T1
Valid prediction for GlimmerHMM_glimmerT_51532-T1
Couldn't classify 69443, 69684
Sorry, prediction pasa_asmbl_31787.p1 fails validation.
(GTC)	 AG	69443-69684	GC	GGG
(GAG)	 AG	69906-69994	GT	AGG
(GCC)	 AG	70412-70560	CC	GAC
-recovered pasa_asmbl_31787.p1, terminal, 70412, 70560
-recovered pasa_asmbl_31787.p1, internal, 69443, 69684
-recovered pasa_asmbl_31787.p1, internal, 69906, 69994
Valid prediction for GlimmerHMM_glimmerT_51521-T1
Valid prediction for snap_scaffold_23-snap.1708-T1
Valid prediction for Augustus_model.g34455.t1
Valid prediction for Augustus_model.g34465.t1
Valid prediction for snap_scaffold_23-snap.1711-T1
Valid prediction for GlimmerHMM_glimmerT_51528-T1
Valid prediction for snap_scaffold_23-snap.1712-T1
Valid prediction for snap_scaffold_23-snap.1693-T1
Valid prediction for snap_scaffold_23-snap.1716-T1
Valid prediction for GlimmerHMM_glimmerT_51527-T1
Valid prediction for snap_scaffold_23-snap.1704-T1
Valid prediction for snap_scaffold_23-snap.1689-T1
Valid prediction for snap_scaffold_23-snap.1701-T1
Valid prediction for GlimmerHMM_glimmerT_51513-T1
Valid prediction for snap_scaffold_23-snap.1702-T1
Valid prediction for CodingQuarry_transcript_35767-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_51531-T1
Valid prediction for snap_scaffold_23-snap.1703-T1
Valid prediction for snap_scaffold_23-snap.1717-T1
Valid prediction for snap_scaffold_23-snap.1685-T1
Valid prediction for snap_scaffold_23-snap.1695-T1
Valid prediction for GlimmerHMM_glimmerT_51518-T1
Valid prediction for snap_scaffold_23-snap.1692-T1
Valid prediction for GlimmerHMM_glimmerT_51514-T1
Valid prediction for GlimmerHMM_glimmerT_51524-T1
Valid prediction for snap_scaffold_23-snap.1700-T1
Valid prediction for GlimmerHMM_glimmerT_51522-T1
Valid prediction for Augustus_model.g34462.t1
Valid prediction for snap_scaffold_23-snap.1696-T1
Valid prediction for snap_scaffold_23-snap.1688-T1
Valid prediction for Augustus_model.g34457.t1
Valid prediction for snap_scaffold_23-snap.1706-T1
Valid prediction for Augustus_model.g34453.t1
Valid prediction for snap_scaffold_23-snap.1707-T1
Valid prediction for GlimmerHMM_glimmerT_51523-T1
Valid prediction for snap_scaffold_23-snap.1698-T1
Valid prediction for GlimmerHMM_glimmerT_51534-T1
Valid prediction for snap_scaffold_23-snap.1709-T1
Valid prediction for snap_scaffold_23-snap.1714-T1
Valid prediction for snap_scaffold_23-snap.1686-T1
Valid prediction for snap_scaffold_23-snap.1699-T1
Couldn't classify 16157, 16207
Sorry, prediction pasa_asmbl_31085.p1 fails validation.
(ATG)	 AC	8167-8284	GT	AGG
(ACC)	 AG	8377-8464	GT	AGG
(TTC)	 AG	9711-9891	GT	AGG
(ATC)	 AG	11847-11961	GT	AGG
(GGG)	 AG	13464-13621	GT	AGG
(GGG)	 AG	14640-14729	GT	AGG
(GAC)	 AG	16157-16207	GC	GGG
-recovered pasa_asmbl_31085.p1, initial, 8167, 8284
-recovered pasa_asmbl_31085.p1, internal, 8377, 8464
-recovered pasa_asmbl_31085.p1, internal, 9711, 9891
-recovered pasa_asmbl_31085.p1, internal, 11847, 11961
-recovered pasa_asmbl_31085.p1, internal, 13464, 13621
-recovered pasa_asmbl_31085.p1, internal, 14640, 14729
-recovered pasa_asmbl_31085.p1, internal, 16157, 16207
Valid prediction for GlimmerHMM_glimmerT_51533-T1
Valid prediction for GlimmerHMM_glimmerT_51526-T1
Valid prediction for snap_scaffold_23-snap.1715-T1
Valid prediction for GlimmerHMM_glimmerT_51515-T1
Valid prediction for GlimmerHMM_glimmerT_51511-T1
Valid prediction for HiQ_model.g34464.t1
Valid prediction for GlimmerHMM_glimmerT_51516-T1
Valid prediction for snap_scaffold_23-snap.1694-T1
Valid prediction for GlimmerHMM_glimmerT_51509-T1
Valid prediction for snap_scaffold_23-snap.1713-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12821, rend_intergenic: 8748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22610, rend_intergenic: 13264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51016, rend_intergenic: 46028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53318, rend_intergenic: 52653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70560, rend_intergenic: 53697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77804, rend_intergenic: 74438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121051, rend_intergenic: 116440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142303, rend_intergenic: 137522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151747, rend_intergenic: 143492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160537, rend_intergenic: 152224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164103, rend_intergenic: 161784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 173829
-exon list size: 316


building trellis

0.3    
0.6    
0.9    
1.3    
1.6    
1.9    
2.2    
2.5    
2.8    
3.1    
3.5    
3.8    
4.1    
4.4    
4.7    
5.0    
5.3    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.9    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.3    
12.6    
12.9    
13.2    
13.5    
13.8    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.4    
16.7    
17.0    
17.3    
17.6    
17.9    
18.2    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
23.0    
23.3    
23.6    
23.9    
24.2    
24.5    
24.8    
25.2    
25.5    
25.8    
26.1    
26.4    
26.7    
27.0    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.7    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.9    
47.2    
47.5    
47.8    
48.1    
48.4    
48.7    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.3    
51.6    
51.9    
52.2    
52.5    
52.8    
53.1    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.3    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
73.0    
73.3    
73.6    
73.9    
74.2    
74.5    
74.8    
75.2    
75.5    
75.8    
76.1    
76.4    
76.7    
77.0    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.8    
82.1    
82.4    
82.7    
83.0    
83.3    
83.6    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.2    
86.5    
86.8    
87.1    
87.4    
87.7    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.9    
97.2    
97.5    
97.8    
98.1    
98.4    
98.7    
99.1    
99.4    
99.7    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 12821, rend_intergenic: 8748  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 22610, rend_intergenic: 13264  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51016, rend_intergenic: 46028  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53318, rend_intergenic: 52653  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70560, rend_intergenic: 53697  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77804, rend_intergenic: 74438  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121051, rend_intergenic: 116440  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142303, rend_intergenic: 137522  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151747, rend_intergenic: 143492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160537, rend_intergenic: 152224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164103, rend_intergenic: 161784  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support