-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_20/scaffold_20_12018825-12182972

-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 snap_scaffold_20-snap.2495-T1
Valid prediction for snap_scaffold_20-snap.2504-T1
Valid prediction for GlimmerHMM_glimmerT_46918-T1
Valid prediction for GlimmerHMM_glimmerT_46926-T1
Valid prediction for GlimmerHMM_glimmerT_46931-T1
Valid prediction for pasa_asmbl_27118.p1
Valid prediction for CodingQuarry_transcript_30706-T1
Valid prediction for snap_scaffold_20-snap.2515-T1
Valid prediction for snap_scaffold_20-snap.2477-T1
Valid prediction for snap_scaffold_20-snap.2507-T1
Valid prediction for GlimmerHMM_glimmerT_46917-T1
Valid prediction for GlimmerHMM_glimmerT_46906-T1
Valid prediction for snap_scaffold_20-snap.2516-T1
Valid prediction for snap_scaffold_20-snap.2506-T1
Valid prediction for snap_scaffold_20-snap.2493-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 161308, 161401
Sorry, prediction GlimmerHMM_glimmerT_46932-T1 fails validation.
(ATG)	 AA	158211-158386	GT	TGG
(CTA)	 AG	161308-161401	GT	AGG
-recovered GlimmerHMM_glimmerT_46932-T1, initial, 158211, 158386
-recovered GlimmerHMM_glimmerT_46932-T1, internal, 161308, 161401
Valid prediction for GlimmerHMM_glimmerT_46923-T1
Valid prediction for GlimmerHMM_glimmerT_46914-T1
Valid prediction for snap_scaffold_20-snap.2502-T1
Valid prediction for snap_scaffold_20-snap.2496-T1
Valid prediction for snap_scaffold_20-snap.2501-T1
Valid prediction for GlimmerHMM_glimmerT_46924-T1
Valid prediction for snap_scaffold_20-snap.2491-T1
Couldn't classify 111659, 111728
Couldn't classify 112974, 113099
Sorry, prediction pasa_asmbl_27191.p1 fails validation.
(CTG)	 CT	111659-111728	GT	AGG
(CAC)	 AG	112611-112738	GT	AGG
(TTG)	 AG	112974-113099	CA	ACC
-recovered pasa_asmbl_27191.p1, internal, 112611, 112738
Valid prediction for snap_scaffold_20-snap.2484-T1
Valid prediction for snap_scaffold_20-snap.2494-T1
Valid prediction for GlimmerHMM_glimmerT_46928-T1
Valid prediction for GlimmerHMM_glimmerT_46907-T1
Valid prediction for snap_scaffold_20-snap.2498-T1
Valid prediction for pasa_asmbl_27111.p1
Valid prediction for CodingQuarry_transcript_30704-T1
Valid prediction for GlimmerHMM_glimmerT_46920-T1
Valid prediction for GlimmerHMM_glimmerT_46911-T1
Valid prediction for snap_scaffold_20-snap.2500-T1
Valid prediction for GlimmerHMM_glimmerT_46910-T1
Valid prediction for snap_scaffold_20-snap.2508-T1
Valid prediction for GlimmerHMM_glimmerT_46925-T1
Valid prediction for GlimmerHMM_glimmerT_46913-T1
Valid prediction for pasa_asmbl_27114.p1
Valid prediction for snap_scaffold_20-snap.2497-T1
Valid prediction for snap_scaffold_20-snap.2510-T1
Valid prediction for snap_scaffold_20-snap.2505-T1
Valid prediction for snap_scaffold_20-snap.2513-T1
Valid prediction for snap_scaffold_20-snap.2479-T1
Valid prediction for CodingQuarry_transcript_30705-T1
Valid prediction for snap_scaffold_20-snap.2512-T1
Valid prediction for GlimmerHMM_glimmerT_46921-T1
Valid prediction for snap_scaffold_20-snap.2478-T1
Valid prediction for CodingQuarry_transcript_30701-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_20-snap.2485-T1
Valid prediction for snap_scaffold_20-snap.2503-T1
Valid prediction for GlimmerHMM_glimmerT_46909-T1
Valid prediction for GlimmerHMM_glimmerT_46922-T1
Valid prediction for pasa_asmbl_26214.p1
Valid prediction for snap_scaffold_20-snap.2473-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.2514-T1
Valid prediction for snap_scaffold_20-snap.2476-T1
Couldn't classify 161941, 162321
Sorry, prediction pasa_asmbl_26211.p1 fails validation.
(AGG)	 GG	161941-162321	AA	CCA
Valid prediction for snap_scaffold_20-snap.2486-T1
Valid prediction for snap_scaffold_20-snap.2488-T1
Valid prediction for GlimmerHMM_glimmerT_46929-T1
Couldn't classify 91109, 91675
Sorry, prediction pasa_asmbl_26220.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_26220.p1, terminal, 93179, 93352
-recovered pasa_asmbl_26220.p1, internal, 91894, 92027
-recovered pasa_asmbl_26220.p1, internal, 92289, 92464
-recovered pasa_asmbl_26220.p1, internal, 92783, 92973
Valid prediction for snap_scaffold_20-snap.2482-T1
Valid prediction for snap_scaffold_20-snap.2481-T1
Valid prediction for snap_scaffold_20-snap.2480-T1
Valid prediction for GlimmerHMM_glimmerT_46915-T1
Valid prediction for snap_scaffold_20-snap.2489-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_20-snap.2483-T1
Valid prediction for GlimmerHMM_glimmerT_46912-T1
Valid prediction for GlimmerHMM_glimmerT_46919-T1
Valid prediction for snap_scaffold_20-snap.2492-T1
Valid prediction for snap_scaffold_20-snap.2490-T1
Valid prediction for GlimmerHMM_glimmerT_46930-T1
Valid prediction for snap_scaffold_20-snap.2475-T1
Valid prediction for GlimmerHMM_glimmerT_46908-T1
Valid prediction for snap_scaffold_20-snap.2511-T1
Valid prediction for snap_scaffold_20-snap.2499-T1
Valid prediction for snap_scaffold_20-snap.2487-T1
Valid prediction for GlimmerHMM_glimmerT_46916-T1
Valid prediction for snap_scaffold_20-snap.2474-T1
Valid prediction for GlimmerHMM_glimmerT_46905-T1
Valid prediction for snap_scaffold_20-snap.2509-T1
Valid prediction for GlimmerHMM_glimmerT_46927-T1
Valid prediction for CodingQuarry_transcript_30702-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 42432, rend_intergenic: 39979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 164148
-exon list size: 298


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    
5.3    
5.7    
6.0    
6.3    
6.7    
7.0    
7.3    
7.7    
8.0    
8.3    
8.7    
9.0    
9.3    
9.7    
10.0    
10.3    
10.7    
11.0    
11.3    
11.7    
12.0    
12.3    
12.7    
13.0    
13.3    
13.7    
14.0    
14.3    
14.7    
15.0    
15.3    
15.7    
16.0    
16.3    
16.7    
17.0    
17.3    
17.7    
18.0    
18.3    
18.7    
19.0    
19.3    
19.7    
20.0    
20.3    
20.7    
21.0    
21.3    
21.7    
22.0    
22.3    
22.7    
23.0    
23.3    
23.7    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.3    
26.7    
27.0    
27.3    
27.7    
28.0    
28.3    
28.7    
29.0    
29.3    
29.7    
30.0    
30.3    
30.7    
31.0    
31.3    
31.7    
32.0    
32.3    
32.7    
33.0    
33.3    
33.7    
34.0    
34.3    
34.7    
35.0    
35.3    
35.7    
36.0    
36.3    
36.7    
37.0    
37.3    
37.7    
38.0    
38.3    
38.7    
39.0    
39.3    
39.7    
40.0    
40.3    
40.7    
41.0    
41.3    
41.7    
42.0    
42.3    
42.7    
43.0    
43.3    
43.7    
44.0    
44.3    
44.7    
45.0    
45.3    
45.7    
46.0    
46.3    
46.7    
47.0    
47.3    
47.7    
48.0    
48.3    
48.7    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.3    
51.7    
52.0    
52.3    
52.7    
53.0    
53.3    
53.7    
54.0    
54.3    
54.7    
55.0    
55.3    
55.7    
56.0    
56.3    
56.7    
57.0    
57.3    
57.7    
58.0    
58.3    
58.7    
59.0    
59.3    
59.7    
60.0    
60.3    
60.7    
61.0    
61.3    
61.7    
62.0    
62.3    
62.7    
63.0    
63.3    
63.7    
64.0    
64.3    
64.7    
65.0    
65.3    
65.7    
66.0    
66.3    
66.7    
67.0    
67.3    
67.7    
68.0    
68.3    
68.7    
69.0    
69.3    
69.7    
70.0    
70.3    
70.7    
71.0    
71.3    
71.7    
72.0    
72.3    
72.7    
73.0    
73.3    
73.7    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.3    
76.7    
77.0    
77.3    
77.7    
78.0    
78.3    
78.7    
79.0    
79.3    
79.7    
80.0    
80.3    
80.7    
81.0    
81.3    
81.7    
82.0    
82.3    
82.7    
83.0    
83.3    
83.7    
84.0    
84.3    
84.7    
85.0    
85.3    
85.7    
86.0    
86.3    
86.7    
87.0    
87.3    
87.7    
88.0    
88.3    
88.7    
89.0    
89.3    
89.7    
90.0    
90.3    
90.7    
91.0    
91.3    
91.7    
92.0    
92.3    
92.7    
93.0    
93.3    
93.7    
94.0    
94.3    
94.7    
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 46 predictions from path traversal
Error with prediction: snap lend_intergenic: 42432, rend_intergenic: 39979  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 44 predictions persist after filtering for low support