-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_418

-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: +)Couldn't classify 5356, 5622
Sorry, prediction GlimmerHMM_glimmerT_61824-T1 fails validation.
(ATG)	 AC	159-200	GT	CAG
(GAA)	 AG	2651-2807	GT	AGG
(TGA)	 AG	4690-4848	GT	AAG
(GAT)	 AG	5356-5622	GT	TGG
-recovered GlimmerHMM_glimmerT_61824-T1, initial, 159, 200
-recovered GlimmerHMM_glimmerT_61824-T1, internal, 2651, 2807
-recovered GlimmerHMM_glimmerT_61824-T1, internal, 4690, 4848
-recovered GlimmerHMM_glimmerT_61824-T1, internal, 5356, 5622
Valid prediction for GeneMark_model.107581_t
Couldn't classify 5617, 5747
Sorry, prediction snap_scaffold_418-snap.3-T1 fails validation.
(ATG)	 AC	3988-3991	GT	GGG
(ACA)	 AG	4122-4502	GT	TGG
(GAT)	 AG	4694-4848	GT	AAG
(GTG)	 AG	5409-5548	GT	AGG
(CTC)	 AG	5617-5747	GT	ACG
-recovered snap_scaffold_418-snap.3-T1, initial, 3988, 3991
-recovered snap_scaffold_418-snap.3-T1, internal, 4122, 4502
-recovered snap_scaffold_418-snap.3-T1, internal, 4694, 4848
-recovered snap_scaffold_418-snap.3-T1, internal, 5409, 5548
-recovered snap_scaffold_418-snap.3-T1, internal, 5617, 5747
Valid prediction for GeneMark_model.107580_t
Couldn't classify 72, 200
Sorry, prediction snap_scaffold_418-snap.1-T1 fails validation.
(ACT)	 AG	72-200	GT	CAG
(CCC)	 AG	3279-3383	AC	AAA
-recovered snap_scaffold_418-snap.1-T1, terminal, 3279, 3383
-recovered snap_scaffold_418-snap.1-T1, internal, 72, 200

-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 289, 423
Sorry, prediction GeneMark_model.107582_t fails validation.
(ACA)	 AG	289-423	GC	GAG
(AGA)	 AG	447-608	GC	GAG
(AGA)	 AG	656-765	GT	TAG
(GCC)	 AG	816-849	GT	AAG
(GGA)	 AG	1506-1736	GT	GTG
(GTA)	 AG	1866-1892	GT	GCG
(AGA)	 AG	1916-1936	GT	GAG
(AGA)	 AG	1968-2000	GT	GAG
(CGA)	 AG	2022-2036	GC	GAG
(AGA)	 AG	2060-2081	AG	AGA
-recovered GeneMark_model.107582_t, terminal, 2060, 2081
-recovered GeneMark_model.107582_t, internal, 289, 423
-recovered GeneMark_model.107582_t, internal, 447, 608
-recovered GeneMark_model.107582_t, internal, 656, 765
-recovered GeneMark_model.107582_t, internal, 816, 849
-recovered GeneMark_model.107582_t, internal, 1506, 1736
-recovered GeneMark_model.107582_t, internal, 1866, 1892
-recovered GeneMark_model.107582_t, internal, 1916, 1936
-recovered GeneMark_model.107582_t, internal, 1968, 2000
-recovered GeneMark_model.107582_t, internal, 2022, 2036
Couldn't classify 791, 849
Couldn't classify 4951, 5550
Sorry, prediction snap_scaffold_418-snap.2-T1 fails validation.
(AGT)	 AG	791-849	GT	AAG
(CCC)	 AG	1644-1734	GT	CTG
(AAG)	 AG	2481-2643	GT	CTG
(ACC)	 AG	3728-3913	GT	ATG
(AGG)	 AG	4951-5550	GT	GAG
-recovered snap_scaffold_418-snap.2-T1, internal, 791, 849
-recovered snap_scaffold_418-snap.2-T1, internal, 1644, 1734
-recovered snap_scaffold_418-snap.2-T1, internal, 2481, 2643
-recovered snap_scaffold_418-snap.2-T1, internal, 3728, 3913
-recovered snap_scaffold_418-snap.2-T1, internal, 4951, 5550
Valid prediction for GeneMark_model.107579_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3383, rend_intergenic: 1557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6316, rend_intergenic: 3988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7106
-exon list size: 64


building trellis

1.5    
3.0    
4.5    
6.1    
7.6    
9.1    
10.6    
12.1    
13.6    
15.2    
16.7    
18.2    
19.7    
21.2    
22.7    
24.2    
25.8    
27.3    
28.8    
30.3    
31.8    
33.3    
34.8    
36.4    
37.9    
39.4    
40.9    
42.4    
43.9    
45.5    
47.0    
48.5    
50.0    
51.5    
53.0    
54.5    
56.1    
57.6    
59.1    
60.6    
62.1    
63.6    
65.2    
66.7    
68.2    
69.7    
71.2    
72.7    
74.2    
75.8    
77.3    
78.8    
80.3    
81.8    
83.3    
84.8    
86.4    
87.9    
89.4    
90.9    
92.4    
93.9    
95.5    
97.0    
98.5    
-found 4 predictions from path traversal
Error with prediction: snap lend_intergenic: 3383, rend_intergenic: 1557  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6316, rend_intergenic: 3988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support