-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_2269640-2428461

-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 pasa_asmbl_18642.p1
Valid prediction for GlimmerHMM_glimmerT_39893-T1
Valid prediction for GlimmerHMM_glimmerT_39875-T1
Valid prediction for snap_scaffold_17-snap.506-T1
Couldn't classify 11915, 11944
Couldn't classify 13373, 13463
Sorry, prediction pasa_asmbl_19513.p1 fails validation.
(CCT)	 AC	11915-11944	GT	CGG
(ATT)	 AG	12203-12387	GT	AGG
(CAT)	 AG	13373-13463	GA	TGG
-recovered pasa_asmbl_19513.p1, internal, 12203, 12387
Valid prediction for GlimmerHMM_glimmerT_39892-T1
Valid prediction for CodingQuarry_transcript_21878-T1
Valid prediction for snap_scaffold_17-snap.515-T1
Valid prediction for Augustus_model.g26563.t1
Valid prediction for snap_scaffold_17-snap.499-T1
Valid prediction for snap_scaffold_17-snap.481-T1
Valid prediction for snap_scaffold_17-snap.484-T1
Valid prediction for GlimmerHMM_glimmerT_39881-T1
Valid prediction for snap_scaffold_17-snap.513-T1
Valid prediction for GlimmerHMM_glimmerT_39867-T1
Valid prediction for GlimmerHMM_glimmerT_39887-T1
Valid prediction for snap_scaffold_17-snap.508-T1
Valid prediction for snap_scaffold_17-snap.512-T1
Valid prediction for snap_scaffold_17-snap.477-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for pasa_asmbl_18646.p1
Valid prediction for HiQ_model.g26549.t1
Valid prediction for CodingQuarry_transcript_21883-T1
Valid prediction for CodingQuarry_transcript_21880-T1
Valid prediction for snap_scaffold_17-snap.482-T1
Valid prediction for snap_scaffold_17-snap.497-T1
Valid prediction for Augustus_model.g26554.t1
Valid prediction for GlimmerHMM_glimmerT_39890-T1
Valid prediction for GlimmerHMM_glimmerT_39891-T1
Valid prediction for HiQ_model.g26564.t1
Valid prediction for CodingQuarry_transcript_21879-T1
Valid prediction for HiQ_model.g26562.t1
Valid prediction for snap_scaffold_17-snap.490-T1
Couldn't classify 149894, 150023
Sorry, prediction pasa_asmbl_18649.p1 fails validation.
(AGG)	 AC	149894-150023	GT	AGG
(TGT)	 AG	150178-150275	GT	ACG
(GCA)	 AG	150902-150979	GT	AGG
(ACA)	 AG	152672-152815	GT	TGG
(AGG)	 AG	153229-153314	GT	TCG
(AGA)	 AG	153542-153647	GT	CGG
(GGT)	 AG	155246-155426	GT	TGG
(GTC)	 AG	155587-155762	GT	TGG
(GAG)	 AG	155917-156040	GT	TGG
(ACA)	 AG	156246-156328	GT	AGG
(GTG)	 AG	156506-156649	GT	TTG
(AGA)	 AG	156740-156823	TC	GAT
-recovered pasa_asmbl_18649.p1, terminal, 156740, 156823
-recovered pasa_asmbl_18649.p1, internal, 150178, 150275
-recovered pasa_asmbl_18649.p1, internal, 150902, 150979
-recovered pasa_asmbl_18649.p1, internal, 152672, 152815
-recovered pasa_asmbl_18649.p1, internal, 153229, 153314
-recovered pasa_asmbl_18649.p1, internal, 153542, 153647
-recovered pasa_asmbl_18649.p1, internal, 155246, 155426
-recovered pasa_asmbl_18649.p1, internal, 155587, 155762
-recovered pasa_asmbl_18649.p1, internal, 155917, 156040
-recovered pasa_asmbl_18649.p1, internal, 156246, 156328
-recovered pasa_asmbl_18649.p1, internal, 156506, 156649
Valid prediction for snap_scaffold_17-snap.510-T1
Valid prediction for GlimmerHMM_glimmerT_39879-T1
Valid prediction for CodingQuarry_transcript_21881-T1
Valid prediction for Augustus_model.g26545.t1
Valid prediction for GlimmerHMM_glimmerT_39878-T1
Valid prediction for snap_scaffold_17-snap.476-T1
Valid prediction for CodingQuarry_transcript_21882-T1
Valid prediction for snap_scaffold_17-snap.495-T1
Valid prediction for CodingQuarry_transcript_21884-T1
Valid prediction for snap_scaffold_17-snap.486-T1
Valid prediction for snap_scaffold_17-snap.492-T1
Valid prediction for snap_scaffold_17-snap.504-T1
Valid prediction for CodingQuarry_transcript_21877-T1
Valid prediction for pasa_asmbl_18636.p1
Valid prediction for snap_scaffold_17-snap.503-T1
Valid prediction for Augustus_model.g26552.t1
Valid prediction for Augustus_model.g26561.t1
Valid prediction for GlimmerHMM_glimmerT_39870-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_17-snap.483-T1
Valid prediction for snap_scaffold_17-snap.487-T1
Valid prediction for snap_scaffold_17-snap.509-T1
Valid prediction for GlimmerHMM_glimmerT_39888-T1
Valid prediction for GlimmerHMM_glimmerT_39889-T1
Valid prediction for snap_scaffold_17-snap.478-T1
Valid prediction for snap_scaffold_17-snap.502-T1
Valid prediction for GlimmerHMM_glimmerT_39872-T1
Valid prediction for snap_scaffold_17-snap.479-T1
Valid prediction for snap_scaffold_17-snap.480-T1
Valid prediction for Augustus_model.g26550.t1
Valid prediction for snap_scaffold_17-snap.500-T1
Valid prediction for Augustus_model.g26548.t1
Valid prediction for Augustus_model.g26559.t1
Valid prediction for Augustus_model.g26558.t1
Valid prediction for GlimmerHMM_glimmerT_39876-T1
Valid prediction for snap_scaffold_17-snap.485-T1
Valid prediction for snap_scaffold_17-snap.491-T1
Valid prediction for GlimmerHMM_glimmerT_39884-T1
Valid prediction for GlimmerHMM_glimmerT_39882-T1
Valid prediction for GlimmerHMM_glimmerT_39869-T1
Valid prediction for GlimmerHMM_glimmerT_39885-T1
Valid prediction for GlimmerHMM_glimmerT_39883-T1
Valid prediction for pasa_asmbl_17741.p1
Valid prediction for snap_scaffold_17-snap.511-T1
Valid prediction for Augustus_model.g26555.t1
Couldn't classify 79389, 79505
Couldn't classify 81449, 81589
Sorry, prediction pasa_asmbl_17747.p1 fails validation.
(GTT)	 CT	79389-79505	GT	AGG
(CAT)	 AG	80344-80550	GT	AGG
(GAA)	 AG	81449-81589	GT	AGG
-recovered pasa_asmbl_17747.p1, internal, 80344, 80550
-recovered pasa_asmbl_17747.p1, internal, 81449, 81589
Valid prediction for snap_scaffold_17-snap.493-T1
Valid prediction for Augustus_model.g26546.t1
Valid prediction for snap_scaffold_17-snap.507-T1
Valid prediction for GlimmerHMM_glimmerT_39874-T1
Valid prediction for GlimmerHMM_glimmerT_39871-T1
Valid prediction for Augustus_model.g26557.t1
Valid prediction for snap_scaffold_17-snap.496-T1
Valid prediction for Augustus_model.g26556.t1
Valid prediction for GlimmerHMM_glimmerT_39886-T1
Valid prediction for Augustus_model.g26547.t1
Valid prediction for snap_scaffold_17-snap.514-T1
Valid prediction for snap_scaffold_17-snap.498-T1
Valid prediction for snap_scaffold_17-snap.494-T1
Valid prediction for snap_scaffold_17-snap.505-T1
Valid prediction for Augustus_model.g26553.t1
Valid prediction for HiQ_model.g26551.t1
Valid prediction for GlimmerHMM_glimmerT_39865-T1
Valid prediction for GlimmerHMM_glimmerT_39873-T1
Valid prediction for GlimmerHMM_glimmerT_39877-T1
Valid prediction for pasa_asmbl_17746.p1
Valid prediction for GlimmerHMM_glimmerT_39880-T1
Valid prediction for GlimmerHMM_glimmerT_39866-T1
Valid prediction for snap_scaffold_17-snap.488-T1
Valid prediction for GlimmerHMM_glimmerT_39868-T1
Valid prediction for CodingQuarry_transcript_21876-T1
Valid prediction for snap_scaffold_17-snap.501-T1
Valid prediction for snap_scaffold_17-snap.489-T1
Valid prediction for Augustus_model.g26560.t1
Valid prediction for HiQ_model.g26544.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13625, rend_intergenic: 9530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20103, rend_intergenic: 16338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33217, rend_intergenic: 29193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41788, rend_intergenic: 38779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55307, rend_intergenic: 51789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57058, rend_intergenic: 55551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60667, rend_intergenic: 57717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68476, rend_intergenic: 65470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111604, rend_intergenic: 103849  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113017, rend_intergenic: 112165  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125693, rend_intergenic: 121263  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143171, rend_intergenic: 137818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155827, rend_intergenic: 152308  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 158822
-exon list size: 387


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.5    
1.8    
2.1    
2.3    
2.6    
2.8    
3.1    
3.3    
3.6    
3.9    
4.1    
4.4    
4.6    
4.9    
5.1    
5.4    
5.7    
5.9    
6.2    
6.4    
6.7    
6.9    
7.2    
7.5    
7.7    
8.0    
8.2    
8.5    
8.7    
9.0    
9.3    
9.5    
9.8    
10.0    
10.3    
10.5    
10.8    
11.1    
11.3    
11.6    
11.8    
12.1    
12.3    
12.6    
12.9    
13.1    
13.4    
13.6    
13.9    
14.1    
14.4    
14.7    
14.9    
15.2    
15.4    
15.7    
15.9    
16.2    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
18.0    
18.3    
18.5    
18.8    
19.0    
19.3    
19.5    
19.8    
20.1    
20.3    
20.6    
20.8    
21.1    
21.3    
21.6    
21.9    
22.1    
22.4    
22.6    
22.9    
23.1    
23.4    
23.7    
23.9    
24.2    
24.4    
24.7    
24.9    
25.2    
25.4    
25.7    
26.0    
26.2    
26.5    
26.7    
27.0    
27.2    
27.5    
27.8    
28.0    
28.3    
28.5    
28.8    
29.0    
29.3    
29.6    
29.8    
30.1    
30.3    
30.6    
30.8    
31.1    
31.4    
31.6    
31.9    
32.1    
32.4    
32.6    
32.9    
33.2    
33.4    
33.7    
33.9    
34.2    
34.4    
34.7    
35.0    
35.2    
35.5    
35.7    
36.0    
36.2    
36.5    
36.8    
37.0    
37.3    
37.5    
37.8    
38.0    
38.3    
38.6    
38.8    
39.1    
39.3    
39.6    
39.8    
40.1    
40.4    
40.6    
40.9    
41.1    
41.4    
41.6    
41.9    
42.2    
42.4    
42.7    
42.9    
43.2    
43.4    
43.7    
44.0    
44.2    
44.5    
44.7    
45.0    
45.2    
45.5    
45.8    
46.0    
46.3    
46.5    
46.8    
47.0    
47.3    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.1    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.9    
51.2    
51.4    
51.7    
51.9    
52.2    
52.4    
52.7    
53.0    
53.2    
53.5    
53.7    
54.0    
54.2    
54.5    
54.8    
55.0    
55.3    
55.5    
55.8    
56.0    
56.3    
56.6    
56.8    
57.1    
57.3    
57.6    
57.8    
58.1    
58.4    
58.6    
58.9    
59.1    
59.4    
59.6    
59.9    
60.2    
60.4    
60.7    
60.9    
61.2    
61.4    
61.7    
62.0    
62.2    
62.5    
62.7    
63.0    
63.2    
63.5    
63.8    
64.0    
64.3    
64.5    
64.8    
65.0    
65.3    
65.6    
65.8    
66.1    
66.3    
66.6    
66.8    
67.1    
67.4    
67.6    
67.9    
68.1    
68.4    
68.6    
68.9    
69.2    
69.4    
69.7    
69.9    
70.2    
70.4    
70.7    
71.0    
71.2    
71.5    
71.7    
72.0    
72.2    
72.5    
72.8    
73.0    
73.3    
73.5    
73.8    
74.0    
74.3    
74.6    
74.8    
75.1    
75.3    
75.6    
75.8    
76.1    
76.3    
76.6    
76.9    
77.1    
77.4    
77.6    
77.9    
78.1    
78.4    
78.7    
78.9    
79.2    
79.4    
79.7    
79.9    
80.2    
80.5    
80.7    
81.0    
81.2    
81.5    
81.7    
82.0    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.8    
84.1    
84.3    
84.6    
84.8    
85.1    
85.3    
85.6    
85.9    
86.1    
86.4    
86.6    
86.9    
87.1    
87.4    
87.7    
87.9    
88.2    
88.4    
88.7    
88.9    
89.2    
89.5    
89.7    
90.0    
90.2    
90.5    
90.7    
91.0    
91.3    
91.5    
91.8    
92.0    
92.3    
92.5    
92.8    
93.1    
93.3    
93.6    
93.8    
94.1    
94.3    
94.6    
94.9    
95.1    
95.4    
95.6    
95.9    
96.1    
96.4    
96.7    
96.9    
97.2    
97.4    
97.7    
97.9    
98.2    
98.5    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 13625, rend_intergenic: 9530  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20103, rend_intergenic: 16338  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33217, rend_intergenic: 29193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 41788, rend_intergenic: 38779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55307, rend_intergenic: 51789  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57058, rend_intergenic: 55551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60667, rend_intergenic: 57717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 68476, rend_intergenic: 65470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 111604, rend_intergenic: 103849  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113017, rend_intergenic: 112165  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125693, rend_intergenic: 121263  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143171, rend_intergenic: 137818  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155827, rend_intergenic: 152308  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