-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_826

-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 GlimmerHMM_glimmerT_62271-T1
add_exon() Sorry, GlimmerHMM_glimmerT_62271-T1 524-720-terminal-1 is invalid.
Couldn't classify 524, 688
Couldn't classify 2709, 2814
Sorry, prediction snap_scaffold_826-snap.1-T1 fails validation.
(GAC)	 AG	524-688	GT	AGG
(GGG)	 AG	2406-2416	GT	TGG
(ACG)	 AG	2709-2814	GT	ATG
add_exon() Sorry, snap_scaffold_826-snap.1-T1 524-688-terminal-1 is invalid.
-recovered snap_scaffold_826-snap.1-T1, terminal, 524, 688
-recovered snap_scaffold_826-snap.1-T1, internal, 524, 688
-recovered snap_scaffold_826-snap.1-T1, internal, 2406, 2416
-recovered snap_scaffold_826-snap.1-T1, internal, 2709, 2814
Couldn't classify 210, 223
Sorry, prediction GeneMark_model.108445_t fails validation.
(CTG)	 AG	210-223	GT	CTG
(CCC)	 AG	340-400	GT	AGG
(CCC)	 AG	556-632	GT	CTG
(GGC)	 AG	744-824	GT	AAG
(AGG)	 AG	928-934	AG	GAA
-recovered GeneMark_model.108445_t, terminal, 928, 934
-recovered GeneMark_model.108445_t, internal, 210, 223
-recovered GeneMark_model.108445_t, internal, 340, 400
-recovered GeneMark_model.108445_t, internal, 556, 632
-recovered GeneMark_model.108445_t, internal, 744, 824

-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 1124, 1261
Sorry, prediction GlimmerHMM_glimmerT_62272-T1 fails validation.
(GTC)	 AG	1124-1261	GT	GGG
(CGA)	 AG	2514-2806	CA	AGC
-recovered GlimmerHMM_glimmerT_62272-T1, terminal, 2514, 2806
-recovered GlimmerHMM_glimmerT_62272-T1, internal, 1124, 1261
Couldn't classify 605, 733
Sorry, prediction GeneMark_model.108446_t fails validation.
(TGC)	 AG	605-733	GT	ACG
(AGG)	 AG	968-1086	GT	GGG
(GTC)	 AG	1124-1261	GT	GGG
(GGA)	 AG	1302-1467	GT	CAG
(GGA)	 AG	1741-1749	GT	AGG
(AAG)	 AG	1774-1835	GT	TGG
(GGA)	 AG	1888-1936	GT	GTG
(GGT)	 AG	2049-2090	GT	AGG
(AGA)	 AG	2350-2394	GT	GAG
(GGC)	 AG	2560-2802	GT	GGG
(GAG)	 AG	3193-3346	AA	AAA
-recovered GeneMark_model.108446_t, terminal, 2049, 2090
-recovered GeneMark_model.108446_t, terminal, 2350, 2394
-recovered GeneMark_model.108446_t, terminal, 3193, 3346
-recovered GeneMark_model.108446_t, internal, 605, 733
-recovered GeneMark_model.108446_t, internal, 968, 1086
-recovered GeneMark_model.108446_t, internal, 1124, 1261
-recovered GeneMark_model.108446_t, internal, 1302, 1467
-recovered GeneMark_model.108446_t, internal, 1741, 1749
-recovered GeneMark_model.108446_t, internal, 1774, 1835
-recovered GeneMark_model.108446_t, internal, 1888, 1936
-recovered GeneMark_model.108446_t, internal, 2049, 2090
-recovered GeneMark_model.108446_t, internal, 2350, 2394
-recovered GeneMark_model.108446_t, internal, 2560, 2802
Couldn't classify 1124, 1261
Sorry, prediction snap_scaffold_826-snap.2-T1 fails validation.
(GTC)	 AG	1124-1261	GT	GGG
(CGA)	 AG	2514-2806	CA	AGC
-recovered snap_scaffold_826-snap.2-T1, terminal, 2514, 2806
-recovered snap_scaffold_826-snap.2-T1, internal, 1124, 1261
Valid prediction for Augustus_model.g41390.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2814, rend_intergenic: 1514  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4319
-exon list size: 39


building trellis

2.4    
4.9    
7.3    
9.8    
12.2    
14.6    
17.1    
19.5    
22.0    
24.4    
26.8    
29.3    
31.7    
34.1    
36.6    
39.0    
41.5    
43.9    
46.3    
48.8    
51.2    
53.7    
56.1    
58.5    
61.0    
63.4    
65.9    
68.3    
70.7    
73.2    
75.6    
78.0    
80.5    
82.9    
85.4    
87.8    
90.2    
92.7    
95.1    
97.6    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2814, rend_intergenic: 1514  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