-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_546

-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: +)
-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 2400, 2405
Sorry, prediction GeneMark_model.107909_t fails validation.
(ACA)	 AG	2400-2405	GT	ATG
(GGG)	 AG	2428-2445	GC	GAG
(AGG)	 AG	2467-2541	GT	GTG
(AGA)	 AG	2613-2876	GT	GGG
(GCG)	 AG	2905-2976	GT	AGG
(GAG)	 AG	3601-3636	GT	GAG
(AGA)	 AG	3686-3709	GT	GGG
(GGG)	 AG	3753-3788	GT	GGG
(AGA)	 AG	3824-3829	GT	GAG
(GGG)	 AG	3857-3901	GT	AGG
(AGA)	 AG	4542-4547	GT	GAG
(AAG)	 AG	4570-4606	TG	GAT
-recovered GeneMark_model.107909_t, terminal, 4570, 4606
-recovered GeneMark_model.107909_t, internal, 2400, 2405
-recovered GeneMark_model.107909_t, internal, 2428, 2445
-recovered GeneMark_model.107909_t, internal, 2467, 2541
-recovered GeneMark_model.107909_t, internal, 2613, 2876
-recovered GeneMark_model.107909_t, internal, 2905, 2976
-recovered GeneMark_model.107909_t, internal, 3601, 3636
-recovered GeneMark_model.107909_t, internal, 3686, 3709
-recovered GeneMark_model.107909_t, internal, 3753, 3788
-recovered GeneMark_model.107909_t, internal, 3824, 3829
-recovered GeneMark_model.107909_t, internal, 3857, 3901
-recovered GeneMark_model.107909_t, internal, 4542, 4547
Couldn't classify 3578, 3709
Couldn't classify 5395, 5478
Sorry, prediction snap_scaffold_546-snap.1-T1 fails validation.
(GCG)	 AG	3578-3709	GT	GGG
(GGA)	 AG	5395-5478	GT	AGG
-recovered snap_scaffold_546-snap.1-T1, internal, 3578, 3709
-recovered snap_scaffold_546-snap.1-T1, internal, 5395, 5478
Couldn't classify 5921, 5986
Sorry, prediction GeneMark_model.107908_t fails validation.
(ATG)	 GA	4637-4653	GT	GGG
(GAG)	 AG	4688-4789	GT	CTG
(AGA)	 AG	5129-5147	GT	GAG
(GGA)	 AG	5395-5483	GT	AGG
(GTG)	 AG	5506-5514	GT	AGG
(GAG)	 AG	5612-5623	GT	AGG
(GGT)	 AG	5921-5986	GC	GAG
-recovered GeneMark_model.107908_t, initial, 4637, 4653
-recovered GeneMark_model.107908_t, internal, 4688, 4789
-recovered GeneMark_model.107908_t, internal, 5129, 5147
-recovered GeneMark_model.107908_t, internal, 5395, 5483
-recovered GeneMark_model.107908_t, internal, 5506, 5514
-recovered GeneMark_model.107908_t, internal, 5612, 5623
-recovered GeneMark_model.107908_t, internal, 5921, 5986
Valid prediction for GlimmerHMM_glimmerT_61974-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 5996
-exon list size: 43


building trellis

2.2    
4.4    
6.7    
8.9    
11.1    
13.3    
15.6    
17.8    
20.0    
22.2    
24.4    
26.7    
28.9    
31.1    
33.3    
35.6    
37.8    
40.0    
42.2    
44.4    
46.7    
48.9    
51.1    
53.3    
55.6    
57.8    
60.0    
62.2    
64.4    
66.7    
68.9    
71.1    
73.3    
75.6    
77.8    
80.0    
82.2    
84.4    
86.7    
88.9    
91.1    
93.3    
95.6    
97.8    
-found 2 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support