-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_317

-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_317-snap.1-T1
add_exon() Sorry, snap_scaffold_317-snap.1-T1 131-611-terminal-1 is invalid.
Couldn't classify 5992, 6100
Sorry, prediction snap_scaffold_317-snap.4-T1 fails validation.
(ATG)	 AG	4235-4267	GT	CGG
(CAT)	 AG	4308-4391	GT	AAG
(TTT)	 AG	5307-5344	GT	ATG
(ATA)	 AG	5889-5939	GT	AGG
(TTA)	 AG	5992-6100	GT	AGG
-recovered snap_scaffold_317-snap.4-T1, initial, 4235, 4267
-recovered snap_scaffold_317-snap.4-T1, internal, 4235, 4267
-recovered snap_scaffold_317-snap.4-T1, internal, 4308, 4391
-recovered snap_scaffold_317-snap.4-T1, internal, 5307, 5344
-recovered snap_scaffold_317-snap.4-T1, internal, 5889, 5939
-recovered snap_scaffold_317-snap.4-T1, internal, 5992, 6100
Valid prediction for snap_scaffold_317-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_61686-T1
Valid prediction for GeneMark_model.107284_t
Valid prediction for GeneMark_model.107286_t
Couldn't classify 200, 208
Sorry, prediction GeneMark_model.107282_t fails validation.
(GAG)	 AG	200-208	GT	AGG
(GAG)	 AG	242-301	GT	AGG
(GAG)	 AG	329-406	GT	AGG
(AAG)	 AG	428-433	GT	AGG
(AAG)	 AG	469-474	GT	AGG
(GAA)	 AG	495-524	GT	AGG
(GTG)	 AG	547-600	GT	GAG
(AAG)	 AG	625-681	GT	GAG
(GGA)	 AG	1122-1127	GT	GAG
(AGG)	 AG	1220-1258	GT	GAG
(AGA)	 AG	1286-1558	GT	GAG
(GAG)	 AG	1686-1706	GT	ACG
(AGC)	 AG	1846-1854	GT	GAG
(AAT)	 AG	1887-1929	GT	GGG
(ATC)	 AG	1968-2044	GT	AGG
(CGA)	 AG	2091-2096	GT	AGG
(AAA)	 AG	2123-2237	GT	GAG
(AAG)	 AG	2269-2327	GT	GGG
(AGG)	 AG	2353-2359	TA	GAT
add_exon() Sorry, GeneMark_model.107282_t 1286-1558-terminal-1 is invalid.
-recovered GeneMark_model.107282_t, terminal, 1286, 1558
-recovered GeneMark_model.107282_t, terminal, 1846, 1854
-recovered GeneMark_model.107282_t, terminal, 2091, 2096
-recovered GeneMark_model.107282_t, terminal, 2353, 2359
-recovered GeneMark_model.107282_t, internal, 200, 208
-recovered GeneMark_model.107282_t, internal, 242, 301
-recovered GeneMark_model.107282_t, internal, 329, 406
-recovered GeneMark_model.107282_t, internal, 428, 433
-recovered GeneMark_model.107282_t, internal, 469, 474
-recovered GeneMark_model.107282_t, internal, 495, 524
-recovered GeneMark_model.107282_t, internal, 547, 600
-recovered GeneMark_model.107282_t, internal, 625, 681
-recovered GeneMark_model.107282_t, internal, 1122, 1127
-recovered GeneMark_model.107282_t, internal, 1220, 1258
-recovered GeneMark_model.107282_t, internal, 1286, 1558
-recovered GeneMark_model.107282_t, internal, 1686, 1706
-recovered GeneMark_model.107282_t, internal, 1846, 1854
-recovered GeneMark_model.107282_t, internal, 1887, 1929
-recovered GeneMark_model.107282_t, internal, 1968, 2044
-recovered GeneMark_model.107282_t, internal, 2091, 2096
-recovered GeneMark_model.107282_t, internal, 2123, 2237
-recovered GeneMark_model.107282_t, internal, 2269, 2327

-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 GeneMark_model.107285_t
Couldn't classify 4610, 4726
Sorry, prediction snap_scaffold_317-snap.3-T1 fails validation.
(ATG)	 CT	282-312	GT	GGG
(GTC)	 AG	567-652	GT	ACG
(GCG)	 AG	3096-3180	GT	TTG
(ACA)	 AG	3433-3542	GT	GGG
(GGA)	 AG	4610-4726	GT	GAG
-recovered snap_scaffold_317-snap.3-T1, initial, 282, 312
-recovered snap_scaffold_317-snap.3-T1, internal, 567, 652
-recovered snap_scaffold_317-snap.3-T1, internal, 3096, 3180
-recovered snap_scaffold_317-snap.3-T1, internal, 3433, 3542
-recovered snap_scaffold_317-snap.3-T1, internal, 4610, 4726
Valid prediction for GeneMark_model.107283_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3720, rend_intergenic: 3492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7936, rend_intergenic: 4235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8217
-exon list size: 79


building trellis

1.2    
2.5    
3.7    
4.9    
6.2    
7.4    
8.6    
9.9    
11.1    
12.3    
13.6    
14.8    
16.0    
17.3    
18.5    
19.8    
21.0    
22.2    
23.5    
24.7    
25.9    
27.2    
28.4    
29.6    
30.9    
32.1    
33.3    
34.6    
35.8    
37.0    
38.3    
39.5    
40.7    
42.0    
43.2    
44.4    
45.7    
46.9    
48.1    
49.4    
50.6    
51.9    
53.1    
54.3    
55.6    
56.8    
58.0    
59.3    
60.5    
61.7    
63.0    
64.2    
65.4    
66.7    
67.9    
69.1    
70.4    
71.6    
72.8    
74.1    
75.3    
76.5    
77.8    
79.0    
80.2    
81.5    
82.7    
84.0    
85.2    
86.4    
87.7    
88.9    
90.1    
91.4    
92.6    
93.8    
95.1    
96.3    
97.5    
98.8    
-found 4 predictions from path traversal
Error with prediction: snap lend_intergenic: 3720, rend_intergenic: 3492  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7936, rend_intergenic: 4235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support