-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_964233-1139644

-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 CodingQuarry_transcript_15539-T1
Valid prediction for snap_scaffold_14-snap.160-T1
Valid prediction for GlimmerHMM_glimmerT_33224-T1
Valid prediction for CodingQuarry_transcript_15543-T1
Valid prediction for CodingQuarry_transcript_15537-T1
Valid prediction for snap_scaffold_14-snap.151-T1
Valid prediction for snap_scaffold_14-snap.157-T1
Valid prediction for snap_scaffold_14-snap.148-T1
Valid prediction for Augustus_model.g22196.t1
Valid prediction for Augustus_model.g22198.t1
Valid prediction for Augustus_model.g22199.t1
Valid prediction for Augustus_model.g22195.t1
Valid prediction for GlimmerHMM_glimmerT_33209-T1
Valid prediction for GlimmerHMM_glimmerT_33233-T1
Valid prediction for GlimmerHMM_glimmerT_33227-T1
Valid prediction for pasa_asmbl_11792.p1
Valid prediction for HiQ_model.g22206.t1
Valid prediction for Augustus_model.g22202.t1
Valid prediction for snap_scaffold_14-snap.177-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_14-snap.153-T1
Valid prediction for CodingQuarry_transcript_15536-T1
Valid prediction for snap_scaffold_14-snap.167-T1
Valid prediction for snap_scaffold_14-snap.174-T1
Valid prediction for snap_scaffold_14-snap.172-T1
Valid prediction for snap_scaffold_14-snap.170-T1
Valid prediction for snap_scaffold_14-snap.150-T1
Valid prediction for snap_scaffold_14-snap.149-T1
Valid prediction for GlimmerHMM_glimmerT_33232-T1
Valid prediction for pasa_asmbl_11807.p1
Valid prediction for HiQ_model.g22194.t1
Valid prediction for GlimmerHMM_glimmerT_33226-T1
Valid prediction for pasa_asmbl_11809.p1
Valid prediction for snap_scaffold_14-snap.179-T1
Valid prediction for CodingQuarry_transcript_15538-T1
Valid prediction for HiQ_model.g22200.t1
Valid prediction for CodingQuarry_transcript_15542-T1
Valid prediction for snap_scaffold_14-snap.175-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33219-T1
Valid prediction for snap_scaffold_14-snap.165-T1
Valid prediction for CodingQuarry_transcript_15541-T1
Valid prediction for GlimmerHMM_glimmerT_33223-T1
Valid prediction for snap_scaffold_14-snap.176-T1
Valid prediction for Augustus_model.g22186.t1
Valid prediction for Augustus_model.g22184.t1
Valid prediction for pasa_asmbl_11786.p1
Valid prediction for snap_scaffold_14-snap.171-T1
Valid prediction for GlimmerHMM_glimmerT_33225-T1
Valid prediction for GlimmerHMM_glimmerT_33220-T1
Valid prediction for GlimmerHMM_glimmerT_33211-T1
Valid prediction for HiQ_model.g22203.t1
Valid prediction for GlimmerHMM_glimmerT_33213-T1
Valid prediction for Augustus_model.g22188.t1
Valid prediction for Augustus_model.g22181.t1
Valid prediction for GlimmerHMM_glimmerT_33206-T1
Valid prediction for Augustus_model.g22187.t1
Valid prediction for snap_scaffold_14-snap.166-T1
Valid prediction for snap_scaffold_14-snap.145-T1
Valid prediction for pasa_asmbl_11802.p1
Valid prediction for snap_scaffold_14-snap.163-T1
Valid prediction for GlimmerHMM_glimmerT_33221-T1
Valid prediction for GlimmerHMM_glimmerT_33230-T1
Valid prediction for Augustus_model.g22201.t1
Valid prediction for snap_scaffold_14-snap.169-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_33222-T1
Valid prediction for HiQ_model.g22197.t1
Valid prediction for GlimmerHMM_glimmerT_33216-T1
Valid prediction for GlimmerHMM_glimmerT_33234-T1
Valid prediction for GlimmerHMM_glimmerT_33215-T1
Valid prediction for pasa_asmbl_12862.p1
Valid prediction for Augustus_model.g22205.t1
Valid prediction for Augustus_model.g22183.t1
Valid prediction for pasa_asmbl_12858.p1
Valid prediction for snap_scaffold_14-snap.161-T1
Valid prediction for snap_scaffold_14-snap.178-T1
Valid prediction for snap_scaffold_14-snap.180-T1
Valid prediction for CodingQuarry_transcript_15544-T1
Valid prediction for Augustus_model.g22190.t1
Valid prediction for snap_scaffold_14-snap.162-T1
Valid prediction for Augustus_model.g22204.t1
Valid prediction for snap_scaffold_14-snap.158-T1
Valid prediction for Augustus_model.g22191.t1
Valid prediction for snap_scaffold_14-snap.155-T1
Valid prediction for CodingQuarry_transcript_15545-T1
Valid prediction for snap_scaffold_14-snap.168-T1
Valid prediction for snap_scaffold_14-snap.152-T1
Valid prediction for GlimmerHMM_glimmerT_33210-T1
Valid prediction for GlimmerHMM_glimmerT_33208-T1
Valid prediction for GlimmerHMM_glimmerT_33218-T1
Valid prediction for GlimmerHMM_glimmerT_33229-T1
Valid prediction for snap_scaffold_14-snap.164-T1
Valid prediction for Augustus_model.g22193.t1
Valid prediction for HiQ_model.g22207.t1
Couldn't classify 63474, 63929
Sorry, prediction pasa_asmbl_12859.p1 fails validation.
(ATG)	 TC	62851-62891	GT	GGG
(AGA)	 AG	63013-63061	GT	CTG
(ATC)	 AG	63318-63383	GT	CAG
(ACT)	 AG	63474-63929	CT	GCC
-recovered pasa_asmbl_12859.p1, initial, 62851, 62891
-recovered pasa_asmbl_12859.p1, internal, 63013, 63061
-recovered pasa_asmbl_12859.p1, internal, 63318, 63383
Valid prediction for GlimmerHMM_glimmerT_33217-T1
Valid prediction for snap_scaffold_14-snap.156-T1
Valid prediction for snap_scaffold_14-snap.173-T1
Valid prediction for GlimmerHMM_glimmerT_33214-T1
Valid prediction for Augustus_model.g22182.t1
Valid prediction for Augustus_model.g22192.t1
Valid prediction for GlimmerHMM_glimmerT_33212-T1
Valid prediction for GlimmerHMM_glimmerT_33228-T1
Valid prediction for snap_scaffold_14-snap.146-T1
Valid prediction for Augustus_model.g22185.t1
Valid prediction for snap_scaffold_14-snap.147-T1
Valid prediction for GlimmerHMM_glimmerT_33231-T1
Valid prediction for Augustus_model.g22189.t1
Valid prediction for GlimmerHMM_glimmerT_33207-T1
Valid prediction for snap_scaffold_14-snap.154-T1
Valid prediction for snap_scaffold_14-snap.159-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 47533, rend_intergenic: 46318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62864, rend_intergenic: 54891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78120, rend_intergenic: 70279  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80549, rend_intergenic: 78445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92129, rend_intergenic: 89222  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133641, rend_intergenic: 130651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 175412
-exon list size: 325


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
22.9    
23.2    
23.5    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
29.1    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.5    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 47533, rend_intergenic: 46318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62864, rend_intergenic: 54891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78120, rend_intergenic: 70279  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80549, rend_intergenic: 78445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92129, rend_intergenic: 89222  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133641, rend_intergenic: 130651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support