-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_212478-313421

-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_27-snap.64-T1
Valid prediction for GlimmerHMM_glimmerT_56504-T1
Couldn't classify 81096, 81344
Sorry, prediction pasa_asmbl_35942.p1 fails validation.
(TGC)	 GG	81096-81344	GT	AGG
(CCA)	 AG	81608-81732	GT	CAG
(GTC)	 AG	82010-82220	GG	GAG
-recovered pasa_asmbl_35942.p1, terminal, 82010, 82220
-recovered pasa_asmbl_35942.p1, internal, 81608, 81732
Valid prediction for GlimmerHMM_glimmerT_56512-T1
Valid prediction for snap_scaffold_27-snap.75-T1
Valid prediction for Augustus_model.g37447.t1
Valid prediction for GlimmerHMM_glimmerT_56510-T1
Valid prediction for GlimmerHMM_glimmerT_56495-T1
Valid prediction for CodingQuarry_transcript_41735-T1
Valid prediction for GlimmerHMM_glimmerT_56499-T1
Valid prediction for snap_scaffold_27-snap.69-T1
Valid prediction for HiQ_model.g37450.t1
Valid prediction for snap_scaffold_27-snap.78-T1
Valid prediction for snap_scaffold_27-snap.67-T1
Valid prediction for GlimmerHMM_glimmerT_56516-T1
Valid prediction for snap_scaffold_27-snap.66-T1
Valid prediction for GlimmerHMM_glimmerT_56518-T1
Valid prediction for Augustus_model.g37441.t1
Valid prediction for Augustus_model.g37452.t1
Valid prediction for GlimmerHMM_glimmerT_56503-T1
Valid prediction for Augustus_model.g37436.t1
Valid prediction for snap_scaffold_27-snap.50-T1
Valid prediction for snap_scaffold_27-snap.76-T1
Valid prediction for GlimmerHMM_glimmerT_56501-T1
Valid prediction for GlimmerHMM_glimmerT_56517-T1
Valid prediction for GlimmerHMM_glimmerT_56498-T1
Valid prediction for snap_scaffold_27-snap.68-T1
Valid prediction for snap_scaffold_27-snap.74-T1
Valid prediction for snap_scaffold_27-snap.49-T1
Valid prediction for GlimmerHMM_glimmerT_56514-T1
Valid prediction for Augustus_model.g37439.t1
Valid prediction for GlimmerHMM_glimmerT_56507-T1
Valid prediction for GlimmerHMM_glimmerT_56496-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 GlimmerHMM_glimmerT_56497-T1
Valid prediction for snap_scaffold_27-snap.58-T1
Valid prediction for snap_scaffold_27-snap.61-T1
Valid prediction for snap_scaffold_27-snap.48-T1
Valid prediction for snap_scaffold_27-snap.47-T1
Valid prediction for Augustus_model.g37445.t1
Valid prediction for snap_scaffold_27-snap.70-T1
Valid prediction for GlimmerHMM_glimmerT_56511-T1
Valid prediction for snap_scaffold_27-snap.46-T1
Couldn't classify 19950, 20000
Couldn't classify 24549, 24638
Sorry, prediction pasa_asmbl_36656.p1 fails validation.
(TTG)	 AG	19950-20000	GT	AGG
(ATG)	 AG	20497-20661	GT	AAG
(ATC)	 AG	20821-21043	GT	AGG
(GAT)	 AG	21342-21389	GT	AGG
(GCT)	 AG	22139-22293	GT	AGG
(AAG)	 AG	22534-22697	GT	AAG
(GCA)	 AG	22846-22942	GT	AGG
(GAA)	 AG	24549-24638	GT	ATG
-recovered pasa_asmbl_36656.p1, initial, 20497, 20661
-recovered pasa_asmbl_36656.p1, internal, 19950, 20000
-recovered pasa_asmbl_36656.p1, internal, 20497, 20661
-recovered pasa_asmbl_36656.p1, internal, 20821, 21043
-recovered pasa_asmbl_36656.p1, internal, 21342, 21389
-recovered pasa_asmbl_36656.p1, internal, 22139, 22293
-recovered pasa_asmbl_36656.p1, internal, 22534, 22697
-recovered pasa_asmbl_36656.p1, internal, 22846, 22942
-recovered pasa_asmbl_36656.p1, internal, 24549, 24638
Valid prediction for snap_scaffold_27-snap.55-T1
Valid prediction for GlimmerHMM_glimmerT_56515-T1
Valid prediction for snap_scaffold_27-snap.72-T1
Valid prediction for snap_scaffold_27-snap.62-T1
Valid prediction for Augustus_model.g37442.t1
Valid prediction for GlimmerHMM_glimmerT_56500-T1
Valid prediction for GlimmerHMM_glimmerT_56513-T1
Valid prediction for Augustus_model.g37451.t1
Valid prediction for snap_scaffold_27-snap.77-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_27-snap.73-T1
Valid prediction for snap_scaffold_27-snap.59-T1
Valid prediction for snap_scaffold_27-snap.54-T1
Valid prediction for Augustus_model.g37444.t1
Valid prediction for snap_scaffold_27-snap.65-T1
Valid prediction for snap_scaffold_27-snap.57-T1
Valid prediction for snap_scaffold_27-snap.53-T1
Valid prediction for Augustus_model.g37435.t1
Valid prediction for snap_scaffold_27-snap.56-T1
Valid prediction for Augustus_model.g37449.t1
Valid prediction for Augustus_model.g37434.t1
Valid prediction for GlimmerHMM_glimmerT_56505-T1
Valid prediction for Augustus_model.g37448.t1
Valid prediction for GlimmerHMM_glimmerT_56506-T1
Valid prediction for Augustus_model.g37446.t1
Valid prediction for snap_scaffold_27-snap.60-T1
Valid prediction for Augustus_model.g37443.t1
Valid prediction for GlimmerHMM_glimmerT_56509-T1
Valid prediction for snap_scaffold_27-snap.63-T1
Valid prediction for Augustus_model.g37437.t1
Valid prediction for GlimmerHMM_glimmerT_56508-T1
Valid prediction for GlimmerHMM_glimmerT_56502-T1
Valid prediction for snap_scaffold_27-snap.52-T1
Valid prediction for Augustus_model.g37440.t1
Valid prediction for GlimmerHMM_glimmerT_56494-T1
Valid prediction for snap_scaffold_27-snap.51-T1
Valid prediction for snap_scaffold_27-snap.71-T1
Valid prediction for Augustus_model.g37438.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 47267, rend_intergenic: 45906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 100944
-exon list size: 225


building trellis

0.4    
0.9    
1.3    
1.8    
2.2    
2.6    
3.1    
3.5    
4.0    
4.4    
4.8    
5.3    
5.7    
6.2    
6.6    
7.0    
7.5    
7.9    
8.4    
8.8    
9.3    
9.7    
10.1    
10.6    
11.0    
11.5    
11.9    
12.3    
12.8    
13.2    
13.7    
14.1    
14.5    
15.0    
15.4    
15.9    
16.3    
16.7    
17.2    
17.6    
18.1    
18.5    
18.9    
19.4    
19.8    
20.3    
20.7    
21.1    
21.6    
22.0    
22.5    
22.9    
23.3    
23.8    
24.2    
24.7    
25.1    
25.6    
26.0    
26.4    
26.9    
27.3    
27.8    
28.2    
28.6    
29.1    
29.5    
30.0    
30.4    
30.8    
31.3    
31.7    
32.2    
32.6    
33.0    
33.5    
33.9    
34.4    
34.8    
35.2    
35.7    
36.1    
36.6    
37.0    
37.4    
37.9    
38.3    
38.8    
39.2    
39.6    
40.1    
40.5    
41.0    
41.4    
41.9    
42.3    
42.7    
43.2    
43.6    
44.1    
44.5    
44.9    
45.4    
45.8    
46.3    
46.7    
47.1    
47.6    
48.0    
48.5    
48.9    
49.3    
49.8    
50.2    
50.7    
51.1    
51.5    
52.0    
52.4    
52.9    
53.3    
53.7    
54.2    
54.6    
55.1    
55.5    
55.9    
56.4    
56.8    
57.3    
57.7    
58.1    
58.6    
59.0    
59.5    
59.9    
60.4    
60.8    
61.2    
61.7    
62.1    
62.6    
63.0    
63.4    
63.9    
64.3    
64.8    
65.2    
65.6    
66.1    
66.5    
67.0    
67.4    
67.8    
68.3    
68.7    
69.2    
69.6    
70.0    
70.5    
70.9    
71.4    
71.8    
72.2    
72.7    
73.1    
73.6    
74.0    
74.4    
74.9    
75.3    
75.8    
76.2    
76.7    
77.1    
77.5    
78.0    
78.4    
78.9    
79.3    
79.7    
80.2    
80.6    
81.1    
81.5    
81.9    
82.4    
82.8    
83.3    
83.7    
84.1    
84.6    
85.0    
85.5    
85.9    
86.3    
86.8    
87.2    
87.7    
88.1    
88.5    
89.0    
89.4    
89.9    
90.3    
90.7    
91.2    
91.6    
92.1    
92.5    
93.0    
93.4    
93.8    
94.3    
94.7    
95.2    
95.6    
96.0    
96.5    
96.9    
97.4    
97.8    
98.2    
98.7    
99.1    
99.6    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 47267, rend_intergenic: 45906  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 26 predictions persist after filtering for low support