-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_13/scaffold_13_9490626-9626496

-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_32144-T1
Valid prediction for snap_scaffold_13-snap.1732-T1
Valid prediction for snap_scaffold_13-snap.1736-T1
Valid prediction for snap_scaffold_13-snap.1738-T1
Valid prediction for CodingQuarry_transcript_13201-T1
Valid prediction for GlimmerHMM_glimmerT_32152-T1
Valid prediction for snap_scaffold_13-snap.1725-T1
Valid prediction for CodingQuarry_transcript_13208-T1
Valid prediction for snap_scaffold_13-snap.1734-T1
Valid prediction for GlimmerHMM_glimmerT_32150-T1
Valid prediction for CodingQuarry_transcript_13214-T1
Valid prediction for Augustus_model.g21453.t1
Valid prediction for HiQ_model.g21447.t1
Valid prediction for snap_scaffold_13-snap.1741-T1
Valid prediction for HiQ_model.g21448.t1
Valid prediction for Augustus_model.g21450.t1
Valid prediction for GlimmerHMM_glimmerT_32147-T1
Valid prediction for HiQ_model.g21445.t1
Valid prediction for GlimmerHMM_glimmerT_32159-T1
Valid prediction for Augustus_model.g21452.t1
Valid prediction for GlimmerHMM_glimmerT_32163-T1
Valid prediction for pasa_asmbl_11205.p1
Valid prediction for snap_scaffold_13-snap.1747-T1
Valid prediction for snap_scaffold_13-snap.1722-T1
Valid prediction for Augustus_model.g21442.t1
Couldn't classify 37447, 37776
Sorry, prediction pasa_asmbl_11204.p1 fails validation.
(GAG)	 CA	37447-37776	CA	GAC
Valid prediction for GlimmerHMM_glimmerT_32155-T1
Valid prediction for CodingQuarry_transcript_13206-T1
Valid prediction for snap_scaffold_13-snap.1742-T1
Valid prediction for Augustus_model.g21443.t1
Valid prediction for snap_scaffold_13-snap.1723-T1
Valid prediction for GlimmerHMM_glimmerT_32149-T1
Valid prediction for HiQ_model.g21458.t1
Couldn't classify 67987, 67988
Sorry, prediction CodingQuarry_transcript_13209-T1 fails validation.
(ATG)	 AC	65332-65374	GT	AGG
(TCT)	 AG	66132-66476	GT	TGG
(GTA)	 AG	66630-66711	GT	AGG
(AGG)	 AG	66924-67153	GT	CAG
(CTA)	 AG	67310-67415	GT	AGG
(GAA)	 AG	67800-67849	GT	GTG
(GAA)	 AG	67987-67988	AC	GAA
-recovered CodingQuarry_transcript_13209-T1, initial, 65332, 65374
-recovered CodingQuarry_transcript_13209-T1, internal, 66132, 66476
-recovered CodingQuarry_transcript_13209-T1, internal, 66630, 66711
-recovered CodingQuarry_transcript_13209-T1, internal, 66924, 67153
-recovered CodingQuarry_transcript_13209-T1, internal, 67310, 67415
-recovered CodingQuarry_transcript_13209-T1, internal, 67800, 67849
Valid prediction for snap_scaffold_13-snap.1750-T1
Valid prediction for pasa_asmbl_11210.p1
Valid prediction for snap_scaffold_13-snap.1728-T1
Valid prediction for snap_scaffold_13-snap.1744-T1
Valid prediction for Augustus_model.g21456.t1
Valid prediction for snap_scaffold_13-snap.1737-T1
Valid prediction for pasa_asmbl_11211.p1
Valid prediction for GlimmerHMM_glimmerT_32143-T1
Valid prediction for snap_scaffold_13-snap.1745-T1
Valid prediction for Augustus_model.g21454.t1
Valid prediction for GlimmerHMM_glimmerT_32161-T1
Valid prediction for snap_scaffold_13-snap.1748-T1
Valid prediction for snap_scaffold_13-snap.1735-T1
Valid prediction for GlimmerHMM_glimmerT_32154-T1
Valid prediction for Augustus_model.g21441.t1
Valid prediction for GlimmerHMM_glimmerT_32156-T1
Valid prediction for snap_scaffold_13-snap.1729-T1
Valid prediction for CodingQuarry_transcript_13213-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 CodingQuarry_transcript_13204-T1
Valid prediction for CodingQuarry_transcript_13203-T1
Valid prediction for GlimmerHMM_glimmerT_32153-T1
Valid prediction for snap_scaffold_13-snap.1731-T1
Valid prediction for Augustus_model.g21457.t1
Valid prediction for GlimmerHMM_glimmerT_32160-T1
Valid prediction for GlimmerHMM_glimmerT_32151-T1
Valid prediction for GlimmerHMM_glimmerT_32157-T1
Valid prediction for snap_scaffold_13-snap.1746-T1
Valid prediction for GlimmerHMM_glimmerT_32146-T1
Valid prediction for GlimmerHMM_glimmerT_32158-T1
Valid prediction for HiQ_model.g21455.t1
Valid prediction for CodingQuarry_transcript_13207-T1
Valid prediction for snap_scaffold_13-snap.1739-T1
Valid prediction for snap_scaffold_13-snap.1740-T1
Valid prediction for CodingQuarry_transcript_13211-T1
Valid prediction for GlimmerHMM_glimmerT_32162-T1
Valid prediction for snap_scaffold_13-snap.1721-T1
Valid prediction for GlimmerHMM_glimmerT_32148-T1
Valid prediction for pasa_asmbl_10035.p1
Valid prediction for snap_scaffold_13-snap.1719-T1
Valid prediction for snap_scaffold_13-snap.1720-T1
Valid prediction for snap_scaffold_13-snap.1730-T1
Valid prediction for Augustus_model.g21451.t1
Valid prediction for CodingQuarry_transcript_13205-T1
Valid prediction for Augustus_model.g21449.t1
Valid prediction for snap_scaffold_13-snap.1726-T1
Valid prediction for snap_scaffold_13-snap.1724-T1
Valid prediction for GlimmerHMM_glimmerT_32145-T1
Valid prediction for snap_scaffold_13-snap.1749-T1
Valid prediction for snap_scaffold_13-snap.1743-T1
Valid prediction for snap_scaffold_13-snap.1727-T1
Valid prediction for pasa_asmbl_10037.p1
Valid prediction for pasa_asmbl_10034.p1
Valid prediction for HiQ_model.g21444.t1
Valid prediction for HiQ_model.g21446.t1
Valid prediction for snap_scaffold_13-snap.1733-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15762, rend_intergenic: 14002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36446, rend_intergenic: 26187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50755, rend_intergenic: 48339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57995, rend_intergenic: 54180  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74091, rend_intergenic: 72624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92631, rend_intergenic: 87306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98419, rend_intergenic: 93932  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104913, rend_intergenic: 104318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109007, rend_intergenic: 107306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127374, rend_intergenic: 125622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 135871
-exon list size: 322


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.3    
8.6    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.7    
13.0    
13.3    
13.6    
13.9    
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    
18.5    
18.8    
19.1    
19.4    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
29.0    
29.3    
29.6    
29.9    
30.2    
30.6    
30.9    
31.2    
31.5    
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    
36.1    
36.4    
36.7    
37.0    
37.3    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.1    
44.4    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
47.8    
48.1    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.9    
52.2    
52.5    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.6    
55.9    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.7    
63.0    
63.3    
63.6    
63.9    
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    
68.5    
68.8    
69.1    
69.4    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.6    
80.9    
81.2    
81.5    
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    
86.1    
86.4    
86.7    
87.0    
87.3    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 15762, rend_intergenic: 14002  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36446, rend_intergenic: 26187  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50755, rend_intergenic: 48339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57995, rend_intergenic: 54180  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74091, rend_intergenic: 72624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92631, rend_intergenic: 87306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98419, rend_intergenic: 93932  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104913, rend_intergenic: 104318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109007, rend_intergenic: 107306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127374, rend_intergenic: 125622  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support