-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_9/scaffold_9_15876198-16044285

-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 Augustus_model.g15680.t1
Valid prediction for GlimmerHMM_glimmerT_23551-T1
Valid prediction for GlimmerHMM_glimmerT_23544-T1
Valid prediction for snap_scaffold_9-snap.3240-T1
Valid prediction for snap_scaffold_9-snap.3237-T1
Valid prediction for snap_scaffold_9-snap.3222-T1
Valid prediction for Augustus_model.g15679.t1
Valid prediction for snap_scaffold_9-snap.3206-T1
Valid prediction for GlimmerHMM_glimmerT_23540-T1
Valid prediction for GlimmerHMM_glimmerT_23543-T1
Couldn't classify 138057, 138545
Sorry, prediction pasa_asmbl_54589.p1 fails validation.
(ATC)	 CC	138057-138545	GA	AGG
Valid prediction for GlimmerHMM_glimmerT_23537-T1
Valid prediction for snap_scaffold_9-snap.3226-T1
Valid prediction for GlimmerHMM_glimmerT_23539-T1
Valid prediction for GlimmerHMM_glimmerT_23545-T1
Valid prediction for snap_scaffold_9-snap.3232-T1
Valid prediction for Augustus_model.g15689.t1
Valid prediction for GlimmerHMM_glimmerT_23549-T1
Valid prediction for GlimmerHMM_glimmerT_23560-T1
Valid prediction for Augustus_model.g15682.t1
Valid prediction for GlimmerHMM_glimmerT_23547-T1
Valid prediction for snap_scaffold_9-snap.3216-T1
Valid prediction for snap_scaffold_9-snap.3210-T1
Valid prediction for snap_scaffold_9-snap.3225-T1
Valid prediction for snap_scaffold_9-snap.3213-T1
Valid prediction for snap_scaffold_9-snap.3218-T1
Valid prediction for snap_scaffold_9-snap.3238-T1
Valid prediction for GlimmerHMM_glimmerT_23550-T1
Valid prediction for snap_scaffold_9-snap.3224-T1
Valid prediction for snap_scaffold_9-snap.3207-T1
Couldn't classify 137099, 137231
Couldn't classify 137506, 137801
Sorry, prediction pasa_asmbl_54732.p1 fails validation.
(TCC)	 CC	137099-137231	GT	AGG
(GTG)	 AG	137506-137801	GG	ACG
Valid prediction for Augustus_model.g15690.t1
Valid prediction for snap_scaffold_9-snap.3217-T1
Valid prediction for Augustus_model.g15677.t1
Valid prediction for snap_scaffold_9-snap.3235-T1
Valid prediction for Augustus_model.g15691.t1
Valid prediction for Augustus_model.g15683.t1
Valid prediction for Augustus_model.g15684.t1
Valid prediction for GlimmerHMM_glimmerT_23542-T1
Valid prediction for snap_scaffold_9-snap.3233-T1
Valid prediction for GlimmerHMM_glimmerT_23552-T1
Valid prediction for snap_scaffold_9-snap.3242-T1
Valid prediction for snap_scaffold_9-snap.3220-T1
Valid prediction for GlimmerHMM_glimmerT_23558-T1
Valid prediction for Augustus_model.g15678.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_9-snap.3241-T1
Valid prediction for snap_scaffold_9-snap.3212-T1
Valid prediction for snap_scaffold_9-snap.3228-T1
Valid prediction for snap_scaffold_9-snap.3221-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_9-snap.3208-T1
Valid prediction for snap_scaffold_9-snap.3214-T1
Valid prediction for GlimmerHMM_glimmerT_23541-T1
Valid prediction for GlimmerHMM_glimmerT_23554-T1
Valid prediction for snap_scaffold_9-snap.3223-T1
Valid prediction for snap_scaffold_9-snap.3209-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 60933, 61224
Sorry, prediction pasa_asmbl_55560.p2 fails validation.
(AGG)	 CC	60933-61224	GT	CGG
(AAG)	 AG	61581-61774	CC	AAC
-recovered pasa_asmbl_55560.p2, terminal, 61581, 61774
Valid prediction for GlimmerHMM_glimmerT_23561-T1
Valid prediction for Augustus_model.g15685.t1
Valid prediction for snap_scaffold_9-snap.3243-T1
Valid prediction for GlimmerHMM_glimmerT_23559-T1
Valid prediction for GlimmerHMM_glimmerT_23562-T1
Valid prediction for Augustus_model.g15687.t1
Couldn't classify 92473, 92910
Sorry, prediction pasa_asmbl_55556.p1 fails validation.
(ATC)	 GT	92473-92910	GG	ACG
Valid prediction for snap_scaffold_9-snap.3215-T1
Valid prediction for GlimmerHMM_glimmerT_23553-T1
Valid prediction for Augustus_model.g15688.t1
Valid prediction for GlimmerHMM_glimmerT_23546-T1
Valid prediction for snap_scaffold_9-snap.3227-T1
Valid prediction for GlimmerHMM_glimmerT_23548-T1
Valid prediction for snap_scaffold_9-snap.3229-T1
Valid prediction for snap_scaffold_9-snap.3236-T1
Valid prediction for GlimmerHMM_glimmerT_23538-T1
Valid prediction for snap_scaffold_9-snap.3231-T1
Valid prediction for snap_scaffold_9-snap.3230-T1
Valid prediction for GlimmerHMM_glimmerT_23557-T1
Valid prediction for Augustus_model.g15681.t1
Valid prediction for snap_scaffold_9-snap.3239-T1
Valid prediction for snap_scaffold_9-snap.3211-T1
Valid prediction for snap_scaffold_9-snap.3219-T1
Valid prediction for GlimmerHMM_glimmerT_23556-T1
Valid prediction for GlimmerHMM_glimmerT_23555-T1
Valid prediction for snap_scaffold_9-snap.3245-T1
Couldn't classify 58376, 58475
Sorry, prediction pasa_asmbl_55561.p2 fails validation.
(ATG)	 GA	52885-52925	GT	GGG
(GTG)	 AG	55332-55496	GT	AAG
(GTT)	 AG	56560-56637	GT	AGG
(AGC)	 AG	58376-58475	GG	CAG
-recovered pasa_asmbl_55561.p2, initial, 52885, 52925
-recovered pasa_asmbl_55561.p2, internal, 55332, 55496
-recovered pasa_asmbl_55561.p2, internal, 56560, 56637
Couldn't classify 41872, 42189
Sorry, prediction pasa_asmbl_54588.p2 fails validation.
(CCC)	 AT	41872-42189	CT	AGC
Valid prediction for Augustus_model.g15686.t1
Valid prediction for snap_scaffold_9-snap.3234-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17344, rend_intergenic: 11585  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30691, rend_intergenic: 18843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38752, rend_intergenic: 37146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44121, rend_intergenic: 42570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51087, rend_intergenic: 50008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55508, rend_intergenic: 53339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86937, rend_intergenic: 66536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113069, rend_intergenic: 108293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128347, rend_intergenic: 124836  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135518, rend_intergenic: 129027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145423, rend_intergenic: 140261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148727, rend_intergenic: 146732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153076, rend_intergenic: 150353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 168088
-exon list size: 297


building trellis

0.3    
0.7    
1.0    
1.3    
1.7    
2.0    
2.3    
2.7    
3.0    
3.3    
3.7    
4.0    
4.3    
4.7    
5.0    
5.4    
5.7    
6.0    
6.4    
6.7    
7.0    
7.4    
7.7    
8.0    
8.4    
8.7    
9.0    
9.4    
9.7    
10.0    
10.4    
10.7    
11.0    
11.4    
11.7    
12.0    
12.4    
12.7    
13.0    
13.4    
13.7    
14.0    
14.4    
14.7    
15.1    
15.4    
15.7    
16.1    
16.4    
16.7    
17.1    
17.4    
17.7    
18.1    
18.4    
18.7    
19.1    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.1    
22.4    
22.7    
23.1    
23.4    
23.7    
24.1    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.4    
26.8    
27.1    
27.4    
27.8    
28.1    
28.4    
28.8    
29.1    
29.4    
29.8    
30.1    
30.4    
30.8    
31.1    
31.4    
31.8    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.8    
35.1    
35.5    
35.8    
36.1    
36.5    
36.8    
37.1    
37.5    
37.8    
38.1    
38.5    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.1    
41.5    
41.8    
42.1    
42.5    
42.8    
43.1    
43.5    
43.8    
44.1    
44.5    
44.8    
45.2    
45.5    
45.8    
46.2    
46.5    
46.8    
47.2    
47.5    
47.8    
48.2    
48.5    
48.8    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.2    
51.5    
51.8    
52.2    
52.5    
52.8    
53.2    
53.5    
53.8    
54.2    
54.5    
54.8    
55.2    
55.5    
55.9    
56.2    
56.5    
56.9    
57.2    
57.5    
57.9    
58.2    
58.5    
58.9    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.5    
61.9    
62.2    
62.5    
62.9    
63.2    
63.5    
63.9    
64.2    
64.5    
64.9    
65.2    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.2    
68.6    
68.9    
69.2    
69.6    
69.9    
70.2    
70.6    
70.9    
71.2    
71.6    
71.9    
72.2    
72.6    
72.9    
73.2    
73.6    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
75.9    
76.3    
76.6    
76.9    
77.3    
77.6    
77.9    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
80.9    
81.3    
81.6    
81.9    
82.3    
82.6    
82.9    
83.3    
83.6    
83.9    
84.3    
84.6    
84.9    
85.3    
85.6    
86.0    
86.3    
86.6    
87.0    
87.3    
87.6    
88.0    
88.3    
88.6    
89.0    
89.3    
89.6    
90.0    
90.3    
90.6    
91.0    
91.3    
91.6    
92.0    
92.3    
92.6    
93.0    
93.3    
93.6    
94.0    
94.3    
94.6    
95.0    
95.3    
95.7    
96.0    
96.3    
96.7    
97.0    
97.3    
97.7    
98.0    
98.3    
98.7    
99.0    
99.3    
99.7    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 17344, rend_intergenic: 11585  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30691, rend_intergenic: 18843  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38752, rend_intergenic: 37146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44121, rend_intergenic: 42570  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51087, rend_intergenic: 50008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55508, rend_intergenic: 53339  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86937, rend_intergenic: 66536  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 113069, rend_intergenic: 108293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128347, rend_intergenic: 124836  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 135518, rend_intergenic: 129027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145423, rend_intergenic: 140261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148727, rend_intergenic: 146732  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153076, rend_intergenic: 150353  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 14 predictions persist after filtering for low support