-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_5/scaffold_5_3149551-3313888

-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.g7608.t1
Valid prediction for snap_scaffold_5-snap.636-T1
Valid prediction for Augustus_model.g7617.t1
Couldn't classify 127862, 128191
Sorry, prediction pasa_asmbl_45213.p1 fails validation.
(GTG)	 TC	127862-128191	AA	AGA
Valid prediction for snap_scaffold_5-snap.612-T1
Valid prediction for snap_scaffold_5-snap.623-T1
Valid prediction for snap_scaffold_5-snap.639-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_11660-T1
Valid prediction for GlimmerHMM_glimmerT_11655-T1
Valid prediction for snap_scaffold_5-snap.619-T1
Valid prediction for snap_scaffold_5-snap.622-T1
Valid prediction for snap_scaffold_5-snap.631-T1
Valid prediction for Augustus_model.g7613.t1
Valid prediction for snap_scaffold_5-snap.629-T1
Valid prediction for Augustus_model.g7606.t1
Valid prediction for snap_scaffold_5-snap.632-T1
Valid prediction for Augustus_model.g7614.t1
Valid prediction for GlimmerHMM_glimmerT_11650-T1
Valid prediction for snap_scaffold_5-snap.608-T1
Valid prediction for GlimmerHMM_glimmerT_11659-T1
Valid prediction for pasa_asmbl_45212.p1
Valid prediction for snap_scaffold_5-snap.611-T1
Valid prediction for snap_scaffold_5-snap.615-T1
Valid prediction for snap_scaffold_5-snap.626-T1
Valid prediction for Augustus_model.g7605.t1
Valid prediction for snap_scaffold_5-snap.627-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_5-snap.618-T1
Valid prediction for snap_scaffold_5-snap.614-T1
Valid prediction for Augustus_model.g7609.t1
Valid prediction for Augustus_model.g7616.t1
Valid prediction for snap_scaffold_5-snap.628-T1
Valid prediction for GlimmerHMM_glimmerT_11657-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_5-snap.621-T1
Valid prediction for GlimmerHMM_glimmerT_11661-T1
Valid prediction for Augustus_model.g7612.t1
Couldn't classify 39116, 39326
Sorry, prediction pasa_asmbl_43909.p1 fails validation.
(ATG)	 TC	38485-38594	GT	AGG
(TTC)	 AG	38701-38800	GT	AGG
(ACC)	 AG	38948-39012	GT	AGG
(CCC)	 AG	39116-39326	AT	ACA
-recovered pasa_asmbl_43909.p1, initial, 38485, 38594
-recovered pasa_asmbl_43909.p1, internal, 38701, 38800
-recovered pasa_asmbl_43909.p1, internal, 38948, 39012
Valid prediction for snap_scaffold_5-snap.635-T1
Valid prediction for snap_scaffold_5-snap.625-T1
Valid prediction for pasa_asmbl_43910.p1
Valid prediction for snap_scaffold_5-snap.634-T1
Valid prediction for snap_scaffold_5-snap.633-T1
Valid prediction for snap_scaffold_5-snap.620-T1
Valid prediction for GlimmerHMM_glimmerT_11656-T1
Valid prediction for snap_scaffold_5-snap.630-T1
Valid prediction for snap_scaffold_5-snap.624-T1
Valid prediction for Augustus_model.g7610.t1
Valid prediction for GlimmerHMM_glimmerT_11653-T1
Valid prediction for GlimmerHMM_glimmerT_11651-T1
Valid prediction for Augustus_model.g7607.t1
Valid prediction for HiQ_model.g7615.t1
Valid prediction for snap_scaffold_5-snap.638-T1
Valid prediction for snap_scaffold_5-snap.610-T1
Valid prediction for GlimmerHMM_glimmerT_11658-T1
Valid prediction for HiQ_model.g7618.t1
Couldn't classify 40014, 40595
Sorry, prediction pasa_asmbl_43908.p1 fails validation.
(TAC)	 CC	40014-40595	AC	AAA
Valid prediction for GlimmerHMM_glimmerT_11652-T1
Valid prediction for CodingQuarry_transcript_52001-T1
Valid prediction for GlimmerHMM_glimmerT_11654-T1
Valid prediction for GlimmerHMM_glimmerT_11662-T1
Valid prediction for GlimmerHMM_glimmerT_11663-T1
Valid prediction for snap_scaffold_5-snap.609-T1
Valid prediction for snap_scaffold_5-snap.616-T1
Valid prediction for snap_scaffold_5-snap.613-T1
Valid prediction for snap_scaffold_5-snap.637-T1
Valid prediction for snap_scaffold_5-snap.617-T1
Valid prediction for Augustus_model.g7611.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 38470, rend_intergenic: 31323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52816, rend_intergenic: 46709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60413, rend_intergenic: 57717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73683, rend_intergenic: 70349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79239, rend_intergenic: 75792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150115, rend_intergenic: 131540  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153168, rend_intergenic: 151663  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164338
-exon list size: 289


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.1    
2.4    
2.7    
3.1    
3.4    
3.8    
4.1    
4.5    
4.8    
5.2    
5.5    
5.8    
6.2    
6.5    
6.9    
7.2    
7.6    
7.9    
8.2    
8.6    
8.9    
9.3    
9.6    
10.0    
10.3    
10.7    
11.0    
11.3    
11.7    
12.0    
12.4    
12.7    
13.1    
13.4    
13.7    
14.1    
14.4    
14.8    
15.1    
15.5    
15.8    
16.2    
16.5    
16.8    
17.2    
17.5    
17.9    
18.2    
18.6    
18.9    
19.2    
19.6    
19.9    
20.3    
20.6    
21.0    
21.3    
21.6    
22.0    
22.3    
22.7    
23.0    
23.4    
23.7    
24.1    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.5    
26.8    
27.1    
27.5    
27.8    
28.2    
28.5    
28.9    
29.2    
29.6    
29.9    
30.2    
30.6    
30.9    
31.3    
31.6    
32.0    
32.3    
32.6    
33.0    
33.3    
33.7    
34.0    
34.4    
34.7    
35.1    
35.4    
35.7    
36.1    
36.4    
36.8    
37.1    
37.5    
37.8    
38.1    
38.5    
38.8    
39.2    
39.5    
39.9    
40.2    
40.5    
40.9    
41.2    
41.6    
41.9    
42.3    
42.6    
43.0    
43.3    
43.6    
44.0    
44.3    
44.7    
45.0    
45.4    
45.7    
46.0    
46.4    
46.7    
47.1    
47.4    
47.8    
48.1    
48.5    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.5    
51.9    
52.2    
52.6    
52.9    
53.3    
53.6    
54.0    
54.3    
54.6    
55.0    
55.3    
55.7    
56.0    
56.4    
56.7    
57.0    
57.4    
57.7    
58.1    
58.4    
58.8    
59.1    
59.5    
59.8    
60.1    
60.5    
60.8    
61.2    
61.5    
61.9    
62.2    
62.5    
62.9    
63.2    
63.6    
63.9    
64.3    
64.6    
64.9    
65.3    
65.6    
66.0    
66.3    
66.7    
67.0    
67.4    
67.7    
68.0    
68.4    
68.7    
69.1    
69.4    
69.8    
70.1    
70.4    
70.8    
71.1    
71.5    
71.8    
72.2    
72.5    
72.9    
73.2    
73.5    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
75.9    
76.3    
76.6    
77.0    
77.3    
77.7    
78.0    
78.4    
78.7    
79.0    
79.4    
79.7    
80.1    
80.4    
80.8    
81.1    
81.4    
81.8    
82.1    
82.5    
82.8    
83.2    
83.5    
83.8    
84.2    
84.5    
84.9    
85.2    
85.6    
85.9    
86.3    
86.6    
86.9    
87.3    
87.6    
88.0    
88.3    
88.7    
89.0    
89.3    
89.7    
90.0    
90.4    
90.7    
91.1    
91.4    
91.8    
92.1    
92.4    
92.8    
93.1    
93.5    
93.8    
94.2    
94.5    
94.8    
95.2    
95.5    
95.9    
96.2    
96.6    
96.9    
97.3    
97.6    
97.9    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 17 predictions from path traversal
Error with prediction: snap lend_intergenic: 38470, rend_intergenic: 31323  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52816, rend_intergenic: 46709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60413, rend_intergenic: 57717  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73683, rend_intergenic: 70349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79239, rend_intergenic: 75792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150115, rend_intergenic: 131540  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153168, rend_intergenic: 151663  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 15 predictions persist after filtering for low support