-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1643

-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 101, 183
Sorry, prediction snap_scaffold_1643-snap.1-T1 fails validation.
(GAA)	 AG	101-183	GT	GGG
(CTG)	 AG	985-1404	TG	GAT
-recovered snap_scaffold_1643-snap.1-T1, terminal, 985, 1404
-recovered snap_scaffold_1643-snap.1-T1, internal, 101, 183
Valid prediction for Augustus_model.g41773.t1
add_exon() Sorry, Augustus_model.g41773.t1 101-225-terminal-1 is invalid.

-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 1108, 1161
Sorry, prediction GlimmerHMM_glimmerT_62755-T1 fails validation.
(AGG)	 AG	1108-1161	GT	AGG
(CTC)	 AG	1879-1937	GG	GAG
-recovered GlimmerHMM_glimmerT_62755-T1, terminal, 1879, 1937
-recovered GlimmerHMM_glimmerT_62755-T1, internal, 1108, 1161
Couldn't classify 2053, 2064
Sorry, prediction GeneMark_model.109572_t fails validation.
(ATG)	 AG	1178-1269	GT	CAG
(AAA)	 AG	1587-1679	GT	GAG
(GGA)	 AG	1709-1797	GT	TAG
(CAC)	 AG	1826-1904	GT	ATG
(GGA)	 AG	2011-2025	GT	AGG
(ACA)	 AG	2053-2064	GT	AGG
-recovered GeneMark_model.109572_t, initial, 1178, 1269
-recovered GeneMark_model.109572_t, internal, 1178, 1269
-recovered GeneMark_model.109572_t, internal, 1587, 1679
-recovered GeneMark_model.109572_t, internal, 1709, 1797
-recovered GeneMark_model.109572_t, internal, 1826, 1904
-recovered GeneMark_model.109572_t, internal, 2011, 2025
-recovered GeneMark_model.109572_t, internal, 2053, 2064
Couldn't classify 35, 163
Sorry, prediction GeneMark_model.109574_t fails validation.
(GCA)	 AG	35-163	GT	GAG
(GCG)	 AG	185-251	AT	AGA
-recovered GeneMark_model.109574_t, terminal, 185, 251
-recovered GeneMark_model.109574_t, internal, 35, 163

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

-building trellis in range 1 - 2099
-exon list size: 25


building trellis

3.7    
7.4    
11.1    
14.8    
18.5    
22.2    
25.9    
29.6    
33.3    
37.0    
40.7    
44.4    
48.1    
51.9    
55.6    
59.3    
63.0    
66.7    
70.4    
74.1    
77.8    
81.5    
85.2    
88.9    
92.6    
96.3    
-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support