-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_17149933-17303392

-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_10-snap.3498-T1
Valid prediction for GlimmerHMM_glimmerT_26217-T1
Valid prediction for snap_scaffold_10-snap.3489-T1
Valid prediction for snap_scaffold_10-snap.3482-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g17416.t1
Couldn't classify 61349, 61792
Sorry, prediction pasa_asmbl_5046.p1 fails validation.
(CTT)	 AG	61349-61792	CA	GCC
Valid prediction for snap_scaffold_10-snap.3475-T1
Valid prediction for GlimmerHMM_glimmerT_26219-T1
Valid prediction for Augustus_model.g17415.t1
Valid prediction for Augustus_model.g17423.t1
Valid prediction for Augustus_model.g17417.t1
Couldn't classify 38280, 38348
Sorry, prediction pasa_asmbl_3750.p1 fails validation.
(AGC)	 CC	38280-38348	GT	AGG
(GTG)	 AG	38426-38539	GT	TTG
(AAA)	 AG	39213-39236	GT	AGG
(AGC)	 AG	40391-40480	GT	AGG
(ATG)	 AG	41031-41201	GT	AGG
(GTG)	 AG	41517-41660	GT	AGG
(TGT)	 AG	43227-43393	GT	AGG
(GAG)	 AG	44272-44338	GT	CTG
(ATA)	 AG	44522-44604	GT	AGG
(GGA)	 AG	47037-47220	GT	AGG
(AAT)	 AG	47915-48017	GT	ATG
(TGT)	 AG	50259-50467	TG	GAT
-recovered pasa_asmbl_3750.p1, initial, 41031, 41201
-recovered pasa_asmbl_3750.p1, terminal, 50259, 50467
-recovered pasa_asmbl_3750.p1, internal, 38426, 38539
-recovered pasa_asmbl_3750.p1, internal, 39213, 39236
-recovered pasa_asmbl_3750.p1, internal, 40391, 40480
-recovered pasa_asmbl_3750.p1, internal, 41031, 41201
-recovered pasa_asmbl_3750.p1, internal, 41517, 41660
-recovered pasa_asmbl_3750.p1, internal, 43227, 43393
-recovered pasa_asmbl_3750.p1, internal, 44272, 44338
-recovered pasa_asmbl_3750.p1, internal, 44522, 44604
-recovered pasa_asmbl_3750.p1, internal, 47037, 47220
-recovered pasa_asmbl_3750.p1, internal, 47915, 48017
Valid prediction for snap_scaffold_10-snap.3476-T1
Valid prediction for Augustus_model.g17414.t1
Valid prediction for Augustus_model.g17422.t1
Couldn't classify 27068, 27146
Couldn't classify 31930, 31987
Sorry, prediction pasa_asmbl_3747.p1 fails validation.
(AGA)	 TC	27068-27146	GT	AGG
(ACT)	 AG	27322-27543	GT	GGG
(ACC)	 AG	27780-27871	GT	AGG
(GAC)	 AG	28164-28294	GT	AGG
(GCA)	 AG	28568-28725	GT	AGG
(ATC)	 AG	30520-30593	GT	AGG
(AGC)	 AG	31659-31786	GT	AAG
(TGA)	 AG	31930-31987	AG	AGA
-recovered pasa_asmbl_3747.p1, internal, 27322, 27543
-recovered pasa_asmbl_3747.p1, internal, 27780, 27871
-recovered pasa_asmbl_3747.p1, internal, 28164, 28294
-recovered pasa_asmbl_3747.p1, internal, 28568, 28725
-recovered pasa_asmbl_3747.p1, internal, 30520, 30593
-recovered pasa_asmbl_3747.p1, internal, 31659, 31786
Valid prediction for GlimmerHMM_glimmerT_26225-T1
Valid prediction for snap_scaffold_10-snap.3491-T1
Valid prediction for GlimmerHMM_glimmerT_26222-T1
Couldn't classify 19234, 19299
Sorry, prediction pasa_asmbl_3746.p1 fails validation.
(ACA)	 AG	19234-19299	GT	TGG
(GTG)	 AG	19503-19646	GT	ATG
(GAC)	 AG	19795-19955	GT	AGG
(GAG)	 AG	20276-20339	GT	CAG
(TAC)	 AG	20545-20603	GT	AGG
(GCA)	 AG	20744-20927	GT	AGG
(CAC)	 AG	21340-21439	GT	GAG
(CTT)	 AG	21966-22180	CA	AAC
-recovered pasa_asmbl_3746.p1, terminal, 21340, 21439
-recovered pasa_asmbl_3746.p1, terminal, 21966, 22180
-recovered pasa_asmbl_3746.p1, internal, 19234, 19299
-recovered pasa_asmbl_3746.p1, internal, 19503, 19646
-recovered pasa_asmbl_3746.p1, internal, 19795, 19955
-recovered pasa_asmbl_3746.p1, internal, 20276, 20339
-recovered pasa_asmbl_3746.p1, internal, 20545, 20603
-recovered pasa_asmbl_3746.p1, internal, 20744, 20927
-recovered pasa_asmbl_3746.p1, internal, 21340, 21439
Valid prediction for snap_scaffold_10-snap.3500-T1
Valid prediction for GlimmerHMM_glimmerT_26227-T1
Valid prediction for snap_scaffold_10-snap.3480-T1
Valid prediction for snap_scaffold_10-snap.3497-T1
Couldn't classify 120005, 120134
Couldn't classify 123819, 123948
Sorry, prediction pasa_asmbl_3762.p1 fails validation.
(CTC)	 TT	120005-120134	GT	GGG
(AGC)	 AG	123079-123292	GT	AGG
(TCG)	 AG	123819-123948	CG	AGC
-recovered pasa_asmbl_3762.p1, internal, 123079, 123292
Valid prediction for snap_scaffold_10-snap.3493-T1
Valid prediction for snap_scaffold_10-snap.3486-T1
Valid prediction for snap_scaffold_10-snap.3494-T1
Valid prediction for CodingQuarry_transcript_5686-T1
Valid prediction for snap_scaffold_10-snap.3487-T1
Valid prediction for snap_scaffold_10-snap.3479-T1
Valid prediction for GlimmerHMM_glimmerT_26218-T1
Valid prediction for snap_scaffold_10-snap.3503-T1
Valid prediction for snap_scaffold_10-snap.3505-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 HiQ_model.g17424.t1
Valid prediction for GlimmerHMM_glimmerT_26224-T1
Valid prediction for snap_scaffold_10-snap.3481-T1
Valid prediction for GlimmerHMM_glimmerT_26228-T1
Valid prediction for pasa_asmbl_5036.p1
Valid prediction for snap_scaffold_10-snap.3499-T1
Valid prediction for snap_scaffold_10-snap.3501-T1
Valid prediction for snap_scaffold_10-snap.3496-T1
Valid prediction for snap_scaffold_10-snap.3492-T1
Valid prediction for pasa_asmbl_5037.p1
Valid prediction for Augustus_model.g17421.t1
Valid prediction for Augustus_model.g17419.t1
Valid prediction for snap_scaffold_10-snap.3506-T1
Valid prediction for snap_scaffold_10-snap.3478-T1
Valid prediction for snap_scaffold_10-snap.3490-T1
Valid prediction for GlimmerHMM_glimmerT_26221-T1
Valid prediction for GlimmerHMM_glimmerT_26230-T1
Valid prediction for snap_scaffold_10-snap.3485-T1
Valid prediction for snap_scaffold_10-snap.3483-T1
Valid prediction for GlimmerHMM_glimmerT_26223-T1
Valid prediction for snap_scaffold_10-snap.3504-T1
Valid prediction for snap_scaffold_10-snap.3484-T1
Valid prediction for snap_scaffold_10-snap.3488-T1
Valid prediction for CodingQuarry_transcript_5685-T1
Valid prediction for HiQ_model.g17413.t1
Valid prediction for snap_scaffold_10-snap.3474-T1
Valid prediction for GlimmerHMM_glimmerT_26226-T1
Valid prediction for Augustus_model.g17420.t1
Valid prediction for snap_scaffold_10-snap.3502-T1
Valid prediction for GlimmerHMM_glimmerT_26213-T1
Valid prediction for GlimmerHMM_glimmerT_26220-T1
Valid prediction for GlimmerHMM_glimmerT_26229-T1
Valid prediction for snap_scaffold_10-snap.3477-T1
Valid prediction for Augustus_model.g17425.t1
Valid prediction for HiQ_model.g17418.t1
Valid prediction for GlimmerHMM_glimmerT_26214-T1
Valid prediction for snap_scaffold_10-snap.3495-T1
Valid prediction for GlimmerHMM_glimmerT_26215-T1
Valid prediction for GlimmerHMM_glimmerT_26216-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9921, rend_intergenic: 5921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18683, rend_intergenic: 13835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31993, rend_intergenic: 23001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50467, rend_intergenic: 33762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61594, rend_intergenic: 57295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67858, rend_intergenic: 61767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70284, rend_intergenic: 67865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83029, rend_intergenic: 72009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83900, rend_intergenic: 83210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86958, rend_intergenic: 83938  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94309, rend_intergenic: 92841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101175, rend_intergenic: 95348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103638, rend_intergenic: 101783  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109138, rend_intergenic: 105795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126336, rend_intergenic: 113229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149819, rend_intergenic: 139163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 153460
-exon list size: 332


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.3    
3.6    
3.9    
4.2    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.3    
6.6    
6.9    
7.2    
7.5    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.7    
12.0    
12.3    
12.6    
12.9    
13.2    
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    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.5    
22.8    
23.1    
23.4    
23.7    
24.0    
24.3    
24.6    
24.9    
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    
29.0    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.1    
37.4    
37.7    
38.0    
38.3    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
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    
60.5    
60.8    
61.1    
61.4    
61.7    
62.0    
62.3    
62.6    
62.9    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
76.0    
76.3    
76.6    
76.9    
77.2    
77.5    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
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    
86.8    
87.1    
87.4    
87.7    
88.0    
88.3    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.5    
92.8    
93.1    
93.4    
93.7    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 16 predictions from path traversal
Error with prediction: snap lend_intergenic: 9921, rend_intergenic: 5921  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 18683, rend_intergenic: 13835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31993, rend_intergenic: 23001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50467, rend_intergenic: 33762  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61594, rend_intergenic: 57295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 67858, rend_intergenic: 61767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70284, rend_intergenic: 67865  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83029, rend_intergenic: 72009  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 83900, rend_intergenic: 83210  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86958, rend_intergenic: 83938  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94309, rend_intergenic: 92841  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101175, rend_intergenic: 95348  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 103638, rend_intergenic: 101783  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109138, rend_intergenic: 105795  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126336, rend_intergenic: 113229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 149819, rend_intergenic: 139163  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 12 predictions persist after filtering for low support