-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_4002048-4197465

-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 snap_scaffold_18-snap.841-T1
Valid prediction for CodingQuarry_transcript_23726-T1
Couldn't classify 151657, 151728
Couldn't classify 151897, 152319
Sorry, prediction pasa_asmbl_20505.p1 fails validation.
(TCG)	 CG	151657-151728	GT	TGG
(GTC)	 AG	151897-152319	CC	CCC
Valid prediction for snap_scaffold_18-snap.861-T1
Valid prediction for snap_scaffold_18-snap.852-T1
Valid prediction for snap_scaffold_18-snap.845-T1
Valid prediction for CodingQuarry_transcript_23729-T1
Valid prediction for GlimmerHMM_glimmerT_42106-T1
Valid prediction for GlimmerHMM_glimmerT_42120-T1
Valid prediction for snap_scaffold_18-snap.848-T1
Valid prediction for snap_scaffold_18-snap.831-T1
Couldn't classify 117120, 117275
Couldn't classify 117754, 117923
Couldn't classify 120171, 120445
Sorry, prediction pasa_asmbl_20496.p1 fails validation.
(ATG)	 AA	115399-115458	GT	AGG
(GAA)	 AG	116443-116652	GT	GGG
(TGG)	 AG	116815-116918	GT	GGG
(GTT)	 AG	117120-117275	AT	ACA
(ACA)	 AC	117754-117923	GT	CGG
(GGT)	 AG	118488-118601	GT	AGG
(GTG)	 AG	120171-120445	CC	GCC
-recovered pasa_asmbl_20496.p1, initial, 115399, 115458
-recovered pasa_asmbl_20496.p1, internal, 116443, 116652
-recovered pasa_asmbl_20496.p1, internal, 116815, 116918
-recovered pasa_asmbl_20496.p1, internal, 118488, 118601
Valid prediction for snap_scaffold_18-snap.860-T1
Valid prediction for GlimmerHMM_glimmerT_42117-T1
Valid prediction for HiQ_model.g28054.t1
Couldn't classify 120587, 120669
Sorry, prediction pasa_asmbl_20498.p1 fails validation.
(GAC)	 CA	120587-120669	GT	AGG
(AAA)	 AG	121111-121233	GT	GGG
(GGA)	 AG	121920-122035	GT	AGG
(CTG)	 AG	122165-122318	GT	AGG
(AGG)	 AG	122696-122918	CG	AAC
-recovered pasa_asmbl_20498.p1, terminal, 122696, 122918
-recovered pasa_asmbl_20498.p1, internal, 121111, 121233
-recovered pasa_asmbl_20498.p1, internal, 121920, 122035
-recovered pasa_asmbl_20498.p1, internal, 122165, 122318
Valid prediction for snap_scaffold_18-snap.839-T1
Valid prediction for pasa_asmbl_20504.p1
Valid prediction for GlimmerHMM_glimmerT_42119-T1
Valid prediction for snap_scaffold_18-snap.855-T1
Valid prediction for HiQ_model.g28056.t1
Valid prediction for snap_scaffold_18-snap.836-T1
Valid prediction for snap_scaffold_18-snap.862-T1
Valid prediction for GlimmerHMM_glimmerT_42116-T1
Valid prediction for GlimmerHMM_glimmerT_42114-T1
Valid prediction for snap_scaffold_18-snap.853-T1
Valid prediction for snap_scaffold_18-snap.858-T1
Valid prediction for CodingQuarry_transcript_23731-T1
Valid prediction for pasa_asmbl_20508.p1
Valid prediction for GlimmerHMM_glimmerT_42105-T1
Valid prediction for snap_scaffold_18-snap.832-T1
Valid prediction for GlimmerHMM_glimmerT_42108-T1
Valid prediction for pasa_asmbl_20494.p1
Valid prediction for Augustus_model.g28042.t1
Valid prediction for snap_scaffold_18-snap.829-T1
Valid prediction for snap_scaffold_18-snap.854-T1
Valid prediction for Augustus_model.g28055.t1
Valid prediction for Augustus_model.g28043.t1
Valid prediction for snap_scaffold_18-snap.834-T1
Valid prediction for snap_scaffold_18-snap.849-T1
Valid prediction for snap_scaffold_18-snap.864-T1
Valid prediction for snap_scaffold_18-snap.835-T1
Valid prediction for GlimmerHMM_glimmerT_42115-T1
Valid prediction for CodingQuarry_transcript_23730-T1
Valid prediction for HiQ_model.g28046.t1
Valid prediction for GlimmerHMM_glimmerT_42118-T1
Valid prediction for Augustus_model.g28053.t1
Valid prediction for Augustus_model.g28044.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_18-snap.846-T1
Valid prediction for snap_scaffold_18-snap.837-T1
Valid prediction for Augustus_model.g28047.t1
Valid prediction for snap_scaffold_18-snap.863-T1
Valid prediction for snap_scaffold_18-snap.856-T1
Valid prediction for CodingQuarry_transcript_23725-T1
Valid prediction for snap_scaffold_18-snap.833-T1
Valid prediction for Augustus_model.g28050.t1
Valid prediction for GlimmerHMM_glimmerT_42121-T1
Valid prediction for CodingQuarry_transcript_23724-T1
Valid prediction for GlimmerHMM_glimmerT_42113-T1
Valid prediction for snap_scaffold_18-snap.830-T1
Valid prediction for snap_scaffold_18-snap.842-T1
Valid prediction for Augustus_model.g28049.t1
Valid prediction for GlimmerHMM_glimmerT_42111-T1
Valid prediction for HiQ_model.g28051.t1
Valid prediction for snap_scaffold_18-snap.840-T1
Valid prediction for pasa_asmbl_20240.p1
Valid prediction for snap_scaffold_18-snap.844-T1
Valid prediction for snap_scaffold_18-snap.850-T1
Valid prediction for GlimmerHMM_glimmerT_42122-T1
Valid prediction for GlimmerHMM_glimmerT_42104-T1
Valid prediction for snap_scaffold_18-snap.828-T1
Valid prediction for GlimmerHMM_glimmerT_42107-T1
Valid prediction for Augustus_model.g28057.t1
Valid prediction for snap_scaffold_18-snap.838-T1
Valid prediction for GlimmerHMM_glimmerT_42109-T1
Valid prediction for snap_scaffold_18-snap.857-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for pasa_asmbl_19795.p1
Valid prediction for HiQ_model.g28052.t1
Valid prediction for pasa_asmbl_19791.p1
Valid prediction for CodingQuarry_transcript_23723-T1
Valid prediction for GlimmerHMM_glimmerT_42102-T1
Valid prediction for snap_scaffold_18-snap.843-T1
Valid prediction for snap_scaffold_18-snap.859-T1
Valid prediction for snap_scaffold_18-snap.827-T1
Valid prediction for GlimmerHMM_glimmerT_42103-T1
Valid prediction for CodingQuarry_transcript_23728-T1
Valid prediction for GlimmerHMM_glimmerT_42110-T1
Valid prediction for snap_scaffold_18-snap.851-T1
Valid prediction for Augustus_model.g28041.t1
Valid prediction for HiQ_model.g28045.t1
Valid prediction for GlimmerHMM_glimmerT_42112-T1
Valid prediction for pasa_asmbl_19788.p1
Valid prediction for snap_scaffold_18-snap.847-T1
Valid prediction for Augustus_model.g28048.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 43348, rend_intergenic: 39377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61247, rend_intergenic: 55385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76211, rend_intergenic: 73626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86129, rend_intergenic: 85364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91094, rend_intergenic: 87065  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104433, rend_intergenic: 97170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113327, rend_intergenic: 110117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153144, rend_intergenic: 135419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160184, rend_intergenic: 157235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180538, rend_intergenic: 166829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183559, rend_intergenic: 180883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194878, rend_intergenic: 189357  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 195418
-exon list size: 390


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.0    
2.3    
2.6    
2.8    
3.1    
3.3    
3.6    
3.8    
4.1    
4.3    
4.6    
4.8    
5.1    
5.4    
5.6    
5.9    
6.1    
6.4    
6.6    
6.9    
7.1    
7.4    
7.7    
7.9    
8.2    
8.4    
8.7    
8.9    
9.2    
9.4    
9.7    
9.9    
10.2    
10.5    
10.7    
11.0    
11.2    
11.5    
11.7    
12.0    
12.2    
12.5    
12.8    
13.0    
13.3    
13.5    
13.8    
14.0    
14.3    
14.5    
14.8    
15.1    
15.3    
15.6    
15.8    
16.1    
16.3    
16.6    
16.8    
17.1    
17.3    
17.6    
17.9    
18.1    
18.4    
18.6    
18.9    
19.1    
19.4    
19.6    
19.9    
20.2    
20.4    
20.7    
20.9    
21.2    
21.4    
21.7    
21.9    
22.2    
22.4    
22.7    
23.0    
23.2    
23.5    
23.7    
24.0    
24.2    
24.5    
24.7    
25.0    
25.3    
25.5    
25.8    
26.0    
26.3    
26.5    
26.8    
27.0    
27.3    
27.6    
27.8    
28.1    
28.3    
28.6    
28.8    
29.1    
29.3    
29.6    
29.8    
30.1    
30.4    
30.6    
30.9    
31.1    
31.4    
31.6    
31.9    
32.1    
32.4    
32.7    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
34.9    
35.2    
35.5    
35.7    
36.0    
36.2    
36.5    
36.7    
37.0    
37.2    
37.5    
37.8    
38.0    
38.3    
38.5    
38.8    
39.0    
39.3    
39.5    
39.8    
40.1    
40.3    
40.6    
40.8    
41.1    
41.3    
41.6    
41.8    
42.1    
42.3    
42.6    
42.9    
43.1    
43.4    
43.6    
43.9    
44.1    
44.4    
44.6    
44.9    
45.2    
45.4    
45.7    
45.9    
46.2    
46.4    
46.7    
46.9    
47.2    
47.4    
47.7    
48.0    
48.2    
48.5    
48.7    
49.0    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.0    
51.3    
51.5    
51.8    
52.0    
52.3    
52.6    
52.8    
53.1    
53.3    
53.6    
53.8    
54.1    
54.3    
54.6    
54.8    
55.1    
55.4    
55.6    
55.9    
56.1    
56.4    
56.6    
56.9    
57.1    
57.4    
57.7    
57.9    
58.2    
58.4    
58.7    
58.9    
59.2    
59.4    
59.7    
59.9    
60.2    
60.5    
60.7    
61.0    
61.2    
61.5    
61.7    
62.0    
62.2    
62.5    
62.8    
63.0    
63.3    
63.5    
63.8    
64.0    
64.3    
64.5    
64.8    
65.1    
65.3    
65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.3    
67.6    
67.9    
68.1    
68.4    
68.6    
68.9    
69.1    
69.4    
69.6    
69.9    
70.2    
70.4    
70.7    
70.9    
71.2    
71.4    
71.7    
71.9    
72.2    
72.4    
72.7    
73.0    
73.2    
73.5    
73.7    
74.0    
74.2    
74.5    
74.7    
75.0    
75.3    
75.5    
75.8    
76.0    
76.3    
76.5    
76.8    
77.0    
77.3    
77.6    
77.8    
78.1    
78.3    
78.6    
78.8    
79.1    
79.3    
79.6    
79.8    
80.1    
80.4    
80.6    
80.9    
81.1    
81.4    
81.6    
81.9    
82.1    
82.4    
82.7    
82.9    
83.2    
83.4    
83.7    
83.9    
84.2    
84.4    
84.7    
84.9    
85.2    
85.5    
85.7    
86.0    
86.2    
86.5    
86.7    
87.0    
87.2    
87.5    
87.8    
88.0    
88.3    
88.5    
88.8    
89.0    
89.3    
89.5    
89.8    
90.1    
90.3    
90.6    
90.8    
91.1    
91.3    
91.6    
91.8    
92.1    
92.3    
92.6    
92.9    
93.1    
93.4    
93.6    
93.9    
94.1    
94.4    
94.6    
94.9    
95.2    
95.4    
95.7    
95.9    
96.2    
96.4    
96.7    
96.9    
97.2    
97.4    
97.7    
98.0    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 43348, rend_intergenic: 39377  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61247, rend_intergenic: 55385  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76211, rend_intergenic: 73626  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86129, rend_intergenic: 85364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91094, rend_intergenic: 87065  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104433, rend_intergenic: 97170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113327, rend_intergenic: 110117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153144, rend_intergenic: 135419  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160184, rend_intergenic: 157235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180538, rend_intergenic: 166829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183559, rend_intergenic: 180883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194878, rend_intergenic: 189357  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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