-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_550

-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 1309, 1328
Couldn't classify 5837, 5855
Sorry, prediction GeneMark_model.107915_t fails validation.
(GAG)	 AG	1309-1328	GT	CTG
(GGC)	 AG	1406-1587	GT	TTG
(AGG)	 AG	3638-3769	GC	GAG
(AGA)	 AG	3792-3812	GT	ACG
(AGC)	 AG	3837-4028	GT	GAG
(ATG)	 AG	4072-4140	GT	GAG
(GGC)	 AG	4226-4244	GT	CAG
(CTA)	 AG	4797-4861	GT	CTG
(GAG)	 AG	5765-5806	GT	GAG
(AGA)	 AG	5837-5855	GT	ATG
add_exon() Sorry, GeneMark_model.107915_t 4072-4140-initial-1 is invalid.
-recovered GeneMark_model.107915_t, initial, 4072, 4140
-recovered GeneMark_model.107915_t, internal, 1309, 1328
-recovered GeneMark_model.107915_t, internal, 1406, 1587
-recovered GeneMark_model.107915_t, internal, 3638, 3769
-recovered GeneMark_model.107915_t, internal, 3792, 3812
-recovered GeneMark_model.107915_t, internal, 3837, 4028
-recovered GeneMark_model.107915_t, internal, 4072, 4140
-recovered GeneMark_model.107915_t, internal, 4226, 4244
-recovered GeneMark_model.107915_t, internal, 4797, 4861
-recovered GeneMark_model.107915_t, internal, 5765, 5806
-recovered GeneMark_model.107915_t, internal, 5837, 5855
Couldn't classify 425, 446
Sorry, prediction Augustus_model.g41196.t1 fails validation.
(CGT)	 AG	425-446	GT	AGG
(GAG)	 AG	1309-1332	GG	AGG
-recovered Augustus_model.g41196.t1, terminal, 1309, 1332
-recovered Augustus_model.g41196.t1, internal, 425, 446
Valid prediction for GlimmerHMM_glimmerT_61980-T1
Couldn't classify 1406, 1579
Couldn't classify 5731, 5855
Sorry, prediction snap_scaffold_550-snap.2-T1 fails validation.
(GGC)	 AG	1406-1579	GT	TTG
(CTA)	 AG	4797-4844	GT	AGG
(CGA)	 AG	5731-5855	GT	ATG
-recovered snap_scaffold_550-snap.2-T1, internal, 1406, 1579
-recovered snap_scaffold_550-snap.2-T1, internal, 4797, 4844
-recovered snap_scaffold_550-snap.2-T1, internal, 5731, 5855

-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 4472, 4669
Couldn't classify 5523, 5617
Sorry, prediction snap_scaffold_550-snap.1-T1 fails validation.
(TTC)	 AG	4472-4669	GT	AGG
(AAC)	 AG	5523-5617	GT	TGG
-recovered snap_scaffold_550-snap.1-T1, internal, 4472, 4669
-recovered snap_scaffold_550-snap.1-T1, internal, 5523, 5617

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 1479, rend_intergenic: 1406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 5950
-exon list size: 33


building trellis

2.9    
5.7    
8.6    
11.4    
14.3    
17.1    
20.0    
22.9    
25.7    
28.6    
31.4    
34.3    
37.1    
40.0    
42.9    
45.7    
48.6    
51.4    
54.3    
57.1    
60.0    
62.9    
65.7    
68.6    
71.4    
74.3    
77.1    
80.0    
82.9    
85.7    
88.6    
91.4    
94.3    
97.1    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 1479, rend_intergenic: 1406  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