-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_20/scaffold_20_12014970-12182972

-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 GeneMark_model.83690_t
Valid prediction for GlimmerHMM_glimmerT_48102-T1
Valid prediction for pasa_asmbl_26266.p1
Valid prediction for snap_scaffold_20-snap.2542-T1
Valid prediction for snap_scaffold_20-snap.2552-T1
Valid prediction for snap_scaffold_20-snap.2545-T1
Valid prediction for snap_scaffold_20-snap.2558-T1
Valid prediction for snap_scaffold_20-snap.2550-T1
Valid prediction for GlimmerHMM_glimmerT_48086-T1
Valid prediction for GlimmerHMM_glimmerT_48100-T1
Valid prediction for GlimmerHMM_glimmerT_48090-T1
Valid prediction for snap_scaffold_20-snap.2540-T1
Valid prediction for GeneMark_model.83681_t
Valid prediction for snap_scaffold_20-snap.2551-T1
Valid prediction for GeneMark_model.83685_t
Valid prediction for snap_scaffold_20-snap.2547-T1
Valid prediction for snap_scaffold_20-snap.2523-T1
Valid prediction for snap_scaffold_20-snap.2557-T1
Valid prediction for GlimmerHMM_glimmerT_48091-T1
Valid prediction for GlimmerHMM_glimmerT_48088-T1
Valid prediction for pasa_asmbl_26269.p1
Valid prediction for snap_scaffold_20-snap.2538-T1
Valid prediction for snap_scaffold_20-snap.2536-T1
Valid prediction for CodingQuarry_transcript_30640-T1
Valid prediction for GeneMark_model.83680_t
Valid prediction for GlimmerHMM_glimmerT_48095-T1
Valid prediction for snap_scaffold_20-snap.2524-T1
Valid prediction for snap_scaffold_20-snap.2529-T1
Valid prediction for GeneMark_model.83688_t
Valid prediction for snap_scaffold_20-snap.2560-T1
Valid prediction for GlimmerHMM_glimmerT_48094-T1
Valid prediction for snap_scaffold_20-snap.2532-T1
Valid prediction for snap_scaffold_20-snap.2555-T1
Valid prediction for snap_scaffold_20-snap.2543-T1
Valid prediction for snap_scaffold_20-snap.2554-T1
Valid prediction for GlimmerHMM_glimmerT_48079-T1
Valid prediction for CodingQuarry_transcript_30639-T1
Valid prediction for GlimmerHMM_glimmerT_48104-T1
Valid prediction for GlimmerHMM_glimmerT_48083-T1
Valid prediction for GeneMark_model.83692_t
Valid prediction for GlimmerHMM_glimmerT_48080-T1
Valid prediction for snap_scaffold_20-snap.2522-T1
Couldn't classify 124098, 125030
Sorry, prediction pasa_asmbl_26270.p1 fails validation.
(ACC)	 AT	124098-125030	CA	GAC
Valid prediction for GlimmerHMM_glimmerT_48097-T1
Valid prediction for snap_scaffold_20-snap.2539-T1
Valid prediction for GlimmerHMM_glimmerT_48084-T1
Valid prediction for pasa_asmbl_26263.p1
Valid prediction for GlimmerHMM_glimmerT_48098-T1
Couldn't classify 115514, 115583
Couldn't classify 116829, 116954
Sorry, prediction pasa_asmbl_26336.p1 fails validation.
(CTG)	 CT	115514-115583	GT	AGG
(CAC)	 AG	116466-116593	GT	AGG
(TTG)	 AG	116829-116954	CA	ACC
-recovered pasa_asmbl_26336.p1, internal, 116466, 116593
Valid prediction for CodingQuarry_transcript_30636-T1
Valid prediction for snap_scaffold_20-snap.2549-T1
Valid prediction for snap_scaffold_20-snap.2541-T1
Valid prediction for GlimmerHMM_glimmerT_48099-T1
Valid prediction for snap_scaffold_20-snap.2546-T1
Couldn't classify 165163, 165256
Sorry, prediction GlimmerHMM_glimmerT_48105-T1 fails validation.
(ATG)	 AA	162066-162241	GT	TGG
(CTA)	 AG	165163-165256	GT	AGG
-recovered GlimmerHMM_glimmerT_48105-T1, initial, 162066, 162241
-recovered GlimmerHMM_glimmerT_48105-T1, internal, 165163, 165256

-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: -)Couldn't classify 91109, 91675
Sorry, prediction pasa_asmbl_27145.p1 fails validation.
(GAA)	 GA	91109-91675	GT	AGG
(ACG)	 AG	91894-92027	GT	AGG
(GAG)	 AG	92289-92464	GT	AGG
(GAG)	 AG	92783-92973	GT	AGG
(ACC)	 AG	93179-93352	CC	GAC
-recovered pasa_asmbl_27145.p1, terminal, 93179, 93352
-recovered pasa_asmbl_27145.p1, internal, 91894, 92027
-recovered pasa_asmbl_27145.p1, internal, 92289, 92464
-recovered pasa_asmbl_27145.p1, internal, 92783, 92973
Valid prediction for GeneMark_model.83683_t
Valid prediction for snap_scaffold_20-snap.2528-T1
Valid prediction for snap_scaffold_20-snap.2553-T1
Valid prediction for snap_scaffold_20-snap.2559-T1
Valid prediction for CodingQuarry_transcript_30637-T1
Valid prediction for snap_scaffold_20-snap.2535-T1
Valid prediction for GeneMark_model.83694_t
Valid prediction for snap_scaffold_20-snap.2521-T1
Valid prediction for GlimmerHMM_glimmerT_48096-T1
Valid prediction for GlimmerHMM_glimmerT_48078-T1
Valid prediction for snap_scaffold_20-snap.2531-T1
Valid prediction for GeneMark_model.83686_t
Valid prediction for snap_scaffold_20-snap.2534-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.2525-T1
Valid prediction for GlimmerHMM_glimmerT_48092-T1
Valid prediction for snap_scaffold_20-snap.2533-T1
Valid prediction for GeneMark_model.83682_t
Valid prediction for pasa_asmbl_27140.p1
Valid prediction for GlimmerHMM_glimmerT_48085-T1
Valid prediction for GeneMark_model.83679_t
Valid prediction for GlimmerHMM_glimmerT_48101-T1
Valid prediction for GlimmerHMM_glimmerT_48081-T1
Valid prediction for snap_scaffold_20-snap.2520-T1
Valid prediction for GlimmerHMM_glimmerT_48082-T1
Valid prediction for GeneMark_model.83691_t
Valid prediction for snap_scaffold_20-snap.2527-T1
Valid prediction for snap_scaffold_20-snap.2526-T1
Valid prediction for GlimmerHMM_glimmerT_48087-T1
Valid prediction for GlimmerHMM_glimmerT_48103-T1
Valid prediction for GeneMark_model.83693_t
Valid prediction for snap_scaffold_20-snap.2537-T1
Valid prediction for GlimmerHMM_glimmerT_48089-T1
Valid prediction for snap_scaffold_20-snap.2548-T1
Couldn't classify 40969, 41703
Sorry, prediction pasa_asmbl_27148.p1 fails validation.
(ATT)	 CC	40969-41703	AC	ACA
Valid prediction for snap_scaffold_20-snap.2519-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 161938, 162321
Sorry, prediction pasa_asmbl_27263.p1 fails validation.
(AGG)	 TC	161938-162321	AA	CCA
Valid prediction for snap_scaffold_20-snap.2544-T1
Valid prediction for GeneMark_model.83687_t
Valid prediction for GeneMark_model.83678_t
Valid prediction for GlimmerHMM_glimmerT_48093-T1
Valid prediction for GeneMark_model.83689_t
Valid prediction for GlimmerHMM_glimmerT_48077-T1
Valid prediction for GeneMark_model.83684_t
Valid prediction for snap_scaffold_20-snap.2530-T1
Valid prediction for snap_scaffold_20-snap.2556-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 46287, rend_intergenic: 43834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 168003
-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 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 46287, rend_intergenic: 43834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 31 predictions persist after filtering for low support