-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_4623328-4811920

-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.g29173.t1
Valid prediction for snap_scaffold_19-snap.988-T1
Valid prediction for GlimmerHMM_glimmerT_44025-T1
Valid prediction for pasa_asmbl_21342.p1
Valid prediction for snap_scaffold_19-snap.974-T1
Valid prediction for GlimmerHMM_glimmerT_44034-T1
Valid prediction for GlimmerHMM_glimmerT_44035-T1
Valid prediction for GlimmerHMM_glimmerT_44033-T1
Valid prediction for GlimmerHMM_glimmerT_44023-T1
Valid prediction for snap_scaffold_19-snap.1002-T1
Valid prediction for Augustus_model.g29177.t1
Valid prediction for snap_scaffold_19-snap.1006-T1
Valid prediction for snap_scaffold_19-snap.980-T1
Valid prediction for Augustus_model.g29179.t1
Valid prediction for GlimmerHMM_glimmerT_44031-T1
Valid prediction for GlimmerHMM_glimmerT_44027-T1
Valid prediction for Augustus_model.g29176.t1
Valid prediction for HiQ_model.g29182.t1
Valid prediction for snap_scaffold_19-snap.975-T1
Valid prediction for snap_scaffold_19-snap.978-T1
Valid prediction for snap_scaffold_19-snap.1001-T1
Valid prediction for GlimmerHMM_glimmerT_44029-T1
Valid prediction for GlimmerHMM_glimmerT_44032-T1
Valid prediction for snap_scaffold_19-snap.999-T1
Valid prediction for Augustus_model.g29178.t1
Valid prediction for snap_scaffold_19-snap.985-T1
Valid prediction for snap_scaffold_19-snap.1007-T1
Valid prediction for GlimmerHMM_glimmerT_44038-T1
Valid prediction for snap_scaffold_19-snap.992-T1
Valid prediction for snap_scaffold_19-snap.993-T1
Valid prediction for GlimmerHMM_glimmerT_44022-T1
Valid prediction for Augustus_model.g29175.t1
Valid prediction for Augustus_model.g29170.t1
Valid prediction for snap_scaffold_19-snap.990-T1
Valid prediction for GlimmerHMM_glimmerT_44026-T1
Valid prediction for snap_scaffold_19-snap.998-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_19-snap.981-T1
Valid prediction for GlimmerHMM_glimmerT_44013-T1
Couldn't classify 16656, 17827
Sorry, prediction pasa_asmbl_22132.p1 fails validation.
(ATG)	 AC	8396-8433	GT	TGG
(GTA)	 AG	8743-8827	GT	ATG
(AGT)	 AG	9302-9367	GT	AGG
(TTG)	 AG	10337-10497	GT	AGG
(TTT)	 AG	13066-13207	GT	GGG
(AGC)	 AG	13408-13479	GT	AGG
(AAG)	 AG	13757-13906	GT	AGG
(GGT)	 AG	14050-14211	GT	TGG
(GTG)	 AG	15756-15930	GT	AGG
(GGC)	 AG	16424-16543	GT	TGG
(AAC)	 AG	16656-17827	GT	AGG
-recovered pasa_asmbl_22132.p1, initial, 8396, 8433
-recovered pasa_asmbl_22132.p1, internal, 8743, 8827
-recovered pasa_asmbl_22132.p1, internal, 9302, 9367
-recovered pasa_asmbl_22132.p1, internal, 10337, 10497
-recovered pasa_asmbl_22132.p1, internal, 13066, 13207
-recovered pasa_asmbl_22132.p1, internal, 13408, 13479
-recovered pasa_asmbl_22132.p1, internal, 13757, 13906
-recovered pasa_asmbl_22132.p1, internal, 14050, 14211
-recovered pasa_asmbl_22132.p1, internal, 15756, 15930
-recovered pasa_asmbl_22132.p1, internal, 16424, 16543
-recovered pasa_asmbl_22132.p1, internal, 16656, 17827
Valid prediction for GlimmerHMM_glimmerT_44024-T1
Valid prediction for snap_scaffold_19-snap.982-T1
Valid prediction for snap_scaffold_19-snap.994-T1
Valid prediction for snap_scaffold_19-snap.1000-T1
Valid prediction for snap_scaffold_19-snap.1008-T1
Valid prediction for snap_scaffold_19-snap.977-T1
Valid prediction for Augustus_model.g29172.t1
Valid prediction for snap_scaffold_19-snap.976-T1
Valid prediction for Augustus_model.g29171.t1
Valid prediction for snap_scaffold_19-snap.995-T1
Valid prediction for GlimmerHMM_glimmerT_44028-T1
Valid prediction for Augustus_model.g29174.t1
Valid prediction for HiQ_model.g29183.t1
Valid prediction for snap_scaffold_19-snap.989-T1
Valid prediction for GlimmerHMM_glimmerT_44036-T1
Valid prediction for snap_scaffold_19-snap.987-T1
Valid prediction for GlimmerHMM_glimmerT_44021-T1
Valid prediction for GlimmerHMM_glimmerT_44037-T1
Valid prediction for pasa_asmbl_22133.p1
Valid prediction for snap_scaffold_19-snap.1003-T1
Valid prediction for snap_scaffold_19-snap.986-T1
Valid prediction for snap_scaffold_19-snap.996-T1
Valid prediction for Augustus_model.g29181.t1
Valid prediction for CodingQuarry_transcript_25640-T1
Valid prediction for Augustus_model.g29180.t1
Valid prediction for snap_scaffold_19-snap.984-T1
Valid prediction for GlimmerHMM_glimmerT_44015-T1
Valid prediction for GlimmerHMM_glimmerT_44030-T1
Valid prediction for snap_scaffold_19-snap.983-T1
Valid prediction for snap_scaffold_19-snap.991-T1
Valid prediction for snap_scaffold_19-snap.973-T1
Valid prediction for GlimmerHMM_glimmerT_44020-T1
Valid prediction for snap_scaffold_19-snap.997-T1
Valid prediction for snap_scaffold_19-snap.979-T1
Valid prediction for GlimmerHMM_glimmerT_44017-T1
Valid prediction for snap_scaffold_19-snap.1004-T1
Valid prediction for GlimmerHMM_glimmerT_44014-T1
Valid prediction for GlimmerHMM_glimmerT_44016-T1
Valid prediction for CodingQuarry_transcript_25639-T1
Valid prediction for GlimmerHMM_glimmerT_44039-T1
Valid prediction for snap_scaffold_19-snap.1005-T1
Valid prediction for GlimmerHMM_glimmerT_44019-T1
Valid prediction for GlimmerHMM_glimmerT_44018-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 22464, rend_intergenic: 14553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73198, rend_intergenic: 68081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101435, rend_intergenic: 99167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116194, rend_intergenic: 114639  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118542, rend_intergenic: 116275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131223, rend_intergenic: 121511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145262, rend_intergenic: 132018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158718, rend_intergenic: 155561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180198, rend_intergenic: 173839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 188593
-exon list size: 261


building trellis

0.4    
0.8    
1.1    
1.5    
1.9    
2.3    
2.7    
3.0    
3.4    
3.8    
4.2    
4.6    
4.9    
5.3    
5.7    
6.1    
6.5    
6.8    
7.2    
7.6    
8.0    
8.4    
8.7    
9.1    
9.5    
9.9    
10.3    
10.6    
11.0    
11.4    
11.8    
12.2    
12.5    
12.9    
13.3    
13.7    
14.1    
14.4    
14.8    
15.2    
15.6    
16.0    
16.3    
16.7    
17.1    
17.5    
17.9    
18.3    
18.6    
19.0    
19.4    
19.8    
20.2    
20.5    
20.9    
21.3    
21.7    
22.1    
22.4    
22.8    
23.2    
23.6    
24.0    
24.3    
24.7    
25.1    
25.5    
25.9    
26.2    
26.6    
27.0    
27.4    
27.8    
28.1    
28.5    
28.9    
29.3    
29.7    
30.0    
30.4    
30.8    
31.2    
31.6    
31.9    
32.3    
32.7    
33.1    
33.5    
33.8    
34.2    
34.6    
35.0    
35.4    
35.7    
36.1    
36.5    
36.9    
37.3    
37.6    
38.0    
38.4    
38.8    
39.2    
39.5    
39.9    
40.3    
40.7    
41.1    
41.4    
41.8    
42.2    
42.6    
43.0    
43.3    
43.7    
44.1    
44.5    
44.9    
45.2    
45.6    
46.0    
46.4    
46.8    
47.1    
47.5    
47.9    
48.3    
48.7    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.3    
51.7    
52.1    
52.5    
52.9    
53.2    
53.6    
54.0    
54.4    
54.8    
55.1    
55.5    
55.9    
56.3    
56.7    
57.0    
57.4    
57.8    
58.2    
58.6    
58.9    
59.3    
59.7    
60.1    
60.5    
60.8    
61.2    
61.6    
62.0    
62.4    
62.7    
63.1    
63.5    
63.9    
64.3    
64.6    
65.0    
65.4    
65.8    
66.2    
66.5    
66.9    
67.3    
67.7    
68.1    
68.4    
68.8    
69.2    
69.6    
70.0    
70.3    
70.7    
71.1    
71.5    
71.9    
72.2    
72.6    
73.0    
73.4    
73.8    
74.1    
74.5    
74.9    
75.3    
75.7    
76.0    
76.4    
76.8    
77.2    
77.6    
77.9    
78.3    
78.7    
79.1    
79.5    
79.8    
80.2    
80.6    
81.0    
81.4    
81.7    
82.1    
82.5    
82.9    
83.3    
83.7    
84.0    
84.4    
84.8    
85.2    
85.6    
85.9    
86.3    
86.7    
87.1    
87.5    
87.8    
88.2    
88.6    
89.0    
89.4    
89.7    
90.1    
90.5    
90.9    
91.3    
91.6    
92.0    
92.4    
92.8    
93.2    
93.5    
93.9    
94.3    
94.7    
95.1    
95.4    
95.8    
96.2    
96.6    
97.0    
97.3    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 22464, rend_intergenic: 14553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73198, rend_intergenic: 68081  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 101435, rend_intergenic: 99167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116194, rend_intergenic: 114639  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118542, rend_intergenic: 116275  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131223, rend_intergenic: 121511  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145262, rend_intergenic: 132018  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158718, rend_intergenic: 155561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180198, rend_intergenic: 173839  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support