-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1177

-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 553, 856
Sorry, prediction GeneMark_model.108998_t fails validation.
(CGC)	 AG	553-856	GT	CTG
(AGA)	 AG	889-903	GT	GAG
(ACA)	 AG	924-989	GT	AGG
(AAA)	 AG	1022-1130	GT	GAG
(AAG)	 AG	1174-1322	GT	ATG
(AAA)	 AG	1611-1619	GT	AAG
(AGA)	 AG	1650-1682	GT	GAG
(AGA)	 AG	1708-1833	GT	GAG
(GAA)	 AG	1871-1883	GT	AGG
(GCC)	 AG	1952-1986	GT	GTG
(GGC)	 AG	2108-2122	GT	GTG
(ACA)	 AG	2178-2237	GT	GAG
(ACT)	 AG	2271-2325	GG	AGG
-recovered GeneMark_model.108998_t, terminal, 2271, 2325
-recovered GeneMark_model.108998_t, internal, 553, 856
-recovered GeneMark_model.108998_t, internal, 889, 903
-recovered GeneMark_model.108998_t, internal, 924, 989
-recovered GeneMark_model.108998_t, internal, 1022, 1130
-recovered GeneMark_model.108998_t, internal, 1174, 1322
-recovered GeneMark_model.108998_t, internal, 1611, 1619
-recovered GeneMark_model.108998_t, internal, 1650, 1682
-recovered GeneMark_model.108998_t, internal, 1708, 1833
-recovered GeneMark_model.108998_t, internal, 1871, 1883
-recovered GeneMark_model.108998_t, internal, 1952, 1986
-recovered GeneMark_model.108998_t, internal, 2108, 2122
-recovered GeneMark_model.108998_t, internal, 2178, 2237

-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 2190, 2318
Sorry, prediction Augustus_model.g41564.t1 fails validation.
(ATG)	 AA	1519-1527	GT	CTG
(GGT)	 AG	2190-2318	GT	AGG
-recovered Augustus_model.g41564.t1, initial, 1519, 1527
-recovered Augustus_model.g41564.t1, internal, 2190, 2318
Couldn't classify 249, 560
Couldn't classify 2190, 2509
Sorry, prediction snap_scaffold_1177-snap.1-T1 fails validation.
(ACA)	 AG	249-560	GT	AGG
(GAG)	 AG	565-640	GT	TAG
(CCT)	 AG	1225-1250	GT	CGG
(GGT)	 AG	2190-2509	GT	AGG
-recovered snap_scaffold_1177-snap.1-T1, internal, 249, 560
-recovered snap_scaffold_1177-snap.1-T1, internal, 565, 640
-recovered snap_scaffold_1177-snap.1-T1, internal, 1225, 1250
-recovered snap_scaffold_1177-snap.1-T1, internal, 2190, 2509
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_62510-T1
Valid prediction for GeneMark_model.108999_t

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

-building trellis in range 1 - 3043
-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

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