-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_670

-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 Augustus_model.g41287.t1
Valid prediction for snap_scaffold_670-snap.1-T1
Valid prediction for snap_scaffold_670-snap.2-T1
Couldn't classify 1166, 1198
Sorry, prediction GeneMark_model.108164_t fails validation.
(CTT)	 AG	1166-1198	GT	CCG
(AAA)	 AG	1591-1715	GT	GAG
(CAG)	 AG	1795-1819	GT	GGG
(ATC)	 AG	1925-1940	GT	CTG
(GAC)	 AG	2534-2635	GT	AGG
(GGA)	 AG	2939-2964	GT	GGG
(CAT)	 AG	3035-3112	GT	GGG
(CTG)	 AG	3138-3194	GT	GAG
(TGA)	 AG	3225-3317	GT	AGG
(ATC)	 AG	3597-3619	GT	AGG
(CAA)	 AG	3785-3908	GT	GAG
(ACC)	 AG	3935-4028	AC	GAA
add_exon() Sorry, GeneMark_model.108164_t 1591-1715-terminal-2 is invalid.
-recovered GeneMark_model.108164_t, terminal, 1591, 1715
-recovered GeneMark_model.108164_t, terminal, 3935, 4028
-recovered GeneMark_model.108164_t, internal, 1166, 1198
-recovered GeneMark_model.108164_t, internal, 1591, 1715
-recovered GeneMark_model.108164_t, internal, 1795, 1819
-recovered GeneMark_model.108164_t, internal, 1925, 1940
-recovered GeneMark_model.108164_t, internal, 2534, 2635
-recovered GeneMark_model.108164_t, internal, 2939, 2964
-recovered GeneMark_model.108164_t, internal, 3035, 3112
-recovered GeneMark_model.108164_t, internal, 3138, 3194
-recovered GeneMark_model.108164_t, internal, 3225, 3317
-recovered GeneMark_model.108164_t, internal, 3597, 3619
-recovered GeneMark_model.108164_t, internal, 3785, 3908

-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 345, 802
Sorry, prediction GlimmerHMM_glimmerT_62107-T1 fails validation.
(GCA)	 AG	345-802	GT	GGG
(CTG)	 AG	2642-2789	GT	GTG
(CGC)	 AG	3529-4038	GC	GAG
-recovered GlimmerHMM_glimmerT_62107-T1, terminal, 3529, 4038
-recovered GlimmerHMM_glimmerT_62107-T1, internal, 345, 802
-recovered GlimmerHMM_glimmerT_62107-T1, internal, 2642, 2789
-recovered GlimmerHMM_glimmerT_62107-T1, internal, 3529, 4038
Couldn't classify 261, 309
Sorry, prediction GeneMark_model.108165_t fails validation.
(GTC)	 AG	261-309	GT	GAG
(GCA)	 AG	345-377	GT	ACG
(CAT)	 AG	401-486	GT	AGG
(TGA)	 AG	509-573	GC	GAG
-recovered GeneMark_model.108165_t, terminal, 401, 486
-recovered GeneMark_model.108165_t, terminal, 509, 573
-recovered GeneMark_model.108165_t, internal, 261, 309
-recovered GeneMark_model.108165_t, internal, 345, 377
-recovered GeneMark_model.108165_t, internal, 401, 486
-recovered GeneMark_model.108165_t, internal, 509, 573
Valid prediction for Augustus_model.g41285.t1
Valid prediction for Augustus_model.g41286.t1

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

-building trellis in range 1 - 5035
-exon list size: 46


building trellis

2.1    
4.2    
6.2    
8.3    
10.4    
12.5    
14.6    
16.7    
18.8    
20.8    
22.9    
25.0    
27.1    
29.2    
31.2    
33.3    
35.4    
37.5    
39.6    
41.7    
43.8    
45.8    
47.9    
50.0    
52.1    
54.2    
56.2    
58.3    
60.4    
62.5    
64.6    
66.7    
68.8    
70.8    
72.9    
75.0    
77.1    
79.2    
81.2    
83.3    
85.4    
87.5    
89.6    
91.7    
93.8    
95.8    
97.9    
-found 3 predictions from path traversal

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