-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1677

-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 1649, 1823
Sorry, prediction GlimmerHMM_glimmerT_62774-T1 fails validation.
(ATG)	 TG	356-456	GT	CGG
(GTC)	 AG	1234-1380	GT	AGG
(GAG)	 AG	1649-1823	GT	GGG
-recovered GlimmerHMM_glimmerT_62774-T1, initial, 356, 456
-recovered GlimmerHMM_glimmerT_62774-T1, internal, 1234, 1380
-recovered GlimmerHMM_glimmerT_62774-T1, internal, 1649, 1823
Couldn't classify 318, 456
Couldn't classify 1649, 1823
Sorry, prediction snap_scaffold_1677-snap.1-T1 fails validation.
(ACA)	 AG	318-456	GT	CGG
(TGC)	 AG	1229-1380	GT	AGG
(GAG)	 AG	1649-1823	GT	GGG
-recovered snap_scaffold_1677-snap.1-T1, internal, 318, 456
-recovered snap_scaffold_1677-snap.1-T1, internal, 1229, 1380
-recovered snap_scaffold_1677-snap.1-T1, internal, 1649, 1823
Couldn't classify 318, 456
Sorry, prediction Augustus_model.g41785.t1 fails validation.
(ACA)	 AG	318-456	GT	CGG
(TGC)	 AG	1229-1380	GT	AGG
(GAG)	 AG	1649-1823	GT	GGG
(AGT)	 AG	1975-2043	TC	GAT
-recovered Augustus_model.g41785.t1, terminal, 1975, 2043
-recovered Augustus_model.g41785.t1, internal, 318, 456
-recovered Augustus_model.g41785.t1, internal, 1229, 1380
-recovered Augustus_model.g41785.t1, internal, 1649, 1823
Couldn't classify 1652, 1879
Sorry, prediction GeneMark_model.109610_t fails validation.
(ATG)	 TC	1465-1484	GT	AGG
(GAC)	 AG	1652-1879	GT	GTG
-recovered GeneMark_model.109610_t, initial, 1465, 1484
-recovered GeneMark_model.109610_t, internal, 1652, 1879

-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 1562, 1801
Sorry, prediction GeneMark_model.109609_t fails validation.
(ATG)	 TG	765-790	GT	GAG
(AAG)	 AG	863-901	GT	GAG
(TGA)	 AG	927-938	GT	GGG
(GAG)	 AG	961-1002	GT	AGG
(TGG)	 AG	1031-1042	GT	GAG
(AGG)	 AG	1067-1114	GT	AGG
(AAA)	 AG	1139-1171	GT	CAG
(GGC)	 AG	1325-1363	GC	GGG
(GGC)	 AG	1401-1454	GT	CAG
(AGA)	 AG	1475-1516	GT	CAG
(AGA)	 AG	1562-1801	GT	GTG
-recovered GeneMark_model.109609_t, initial, 765, 790
-recovered GeneMark_model.109609_t, internal, 863, 901
-recovered GeneMark_model.109609_t, internal, 927, 938
-recovered GeneMark_model.109609_t, internal, 961, 1002
-recovered GeneMark_model.109609_t, internal, 1031, 1042
-recovered GeneMark_model.109609_t, internal, 1067, 1114
-recovered GeneMark_model.109609_t, internal, 1139, 1171
-recovered GeneMark_model.109609_t, internal, 1325, 1363
-recovered GeneMark_model.109609_t, internal, 1401, 1454
-recovered GeneMark_model.109609_t, internal, 1475, 1516
-recovered GeneMark_model.109609_t, internal, 1562, 1801

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

-building trellis in range 1 - 2060
-exon list size: 36


building trellis

2.6    
5.3    
7.9    
10.5    
13.2    
15.8    
18.4    
21.1    
23.7    
26.3    
28.9    
31.6    
34.2    
36.8    
39.5    
42.1    
44.7    
47.4    
50.0    
52.6    
55.3    
57.9    
60.5    
63.2    
65.8    
68.4    
71.1    
73.7    
76.3    
78.9    
81.6    
84.2    
86.8    
89.5    
92.1    
94.7    
97.4    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support