-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_900

-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 snap_scaffold_900-snap.2-T1
Couldn't classify 2116, 2252
Sorry, prediction snap_scaffold_900-snap.3-T1 fails validation.
(ATG)	 GA	1189-1420	GT	AAG
(TTG)	 AG	2116-2252	GT	CGG
-recovered snap_scaffold_900-snap.3-T1, initial, 1189, 1420
-recovered snap_scaffold_900-snap.3-T1, internal, 2116, 2252
Couldn't classify 3797, 3805
Sorry, prediction GeneMark_model.108575_t fails validation.
(ATG)	 CA	879-913	GT	GAG
(TGT)	 AG	935-946	GT	GAG
(TGT)	 AG	968-979	GT	GAG
(GCA)	 AG	1008-1034	GT	GAG
(TAG)	 AG	1058-1078	GT	GAG
(TGG)	 AG	1102-1122	GT	GAG
(AGT)	 AG	1144-1395	GT	AGG
(AGG)	 AG	2247-2312	GT	AGG
(AGG)	 AG	2434-2439	GT	AGG
(TGA)	 AG	2470-2526	GT	GTG
(TGA)	 AG	2552-2584	GT	GGG
(TCT)	 AG	3797-3805	GT	GAG
-recovered GeneMark_model.108575_t, initial, 879, 913
-recovered GeneMark_model.108575_t, internal, 935, 946
-recovered GeneMark_model.108575_t, internal, 968, 979
-recovered GeneMark_model.108575_t, internal, 1008, 1034
-recovered GeneMark_model.108575_t, internal, 1058, 1078
-recovered GeneMark_model.108575_t, internal, 1102, 1122
-recovered GeneMark_model.108575_t, internal, 1144, 1395
-recovered GeneMark_model.108575_t, internal, 2247, 2312
-recovered GeneMark_model.108575_t, internal, 2434, 2439
-recovered GeneMark_model.108575_t, internal, 2470, 2526
-recovered GeneMark_model.108575_t, internal, 2552, 2584
-recovered GeneMark_model.108575_t, internal, 3797, 3805

-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 1689, 1900
Sorry, prediction GlimmerHMM_glimmerT_62325-T1 fails validation.
(ATC)	 AG	1689-1900	GT	AAG
(GAA)	 AG	3714-3903	GA	AGG
-recovered GlimmerHMM_glimmerT_62325-T1, terminal, 3714, 3903
-recovered GlimmerHMM_glimmerT_62325-T1, internal, 1689, 1900
Couldn't classify 3714, 3899
Sorry, prediction Augustus_model.g41429.t1 fails validation.
(ATG)	 AC	1725-1900	GT	AAG
(GAA)	 AG	3714-3899	GT	GGG
-recovered Augustus_model.g41429.t1, initial, 1725, 1900
-recovered Augustus_model.g41429.t1, internal, 3714, 3899
Couldn't classify 3752, 3899
Sorry, prediction GeneMark_model.108574_t fails validation.
(ATG)	 TT	3624-3648	GT	GGG
(GGT)	 AG	3752-3899	GT	GGG
-recovered GeneMark_model.108574_t, initial, 3624, 3648
-recovered GeneMark_model.108574_t, internal, 3752, 3899
Couldn't classify 1689, 1900
Couldn't classify 3714, 3899
Sorry, prediction snap_scaffold_900-snap.1-T1 fails validation.
(ATC)	 AG	1689-1900	GT	AAG
(GAA)	 AG	3714-3899	GT	GGG
-recovered snap_scaffold_900-snap.1-T1, internal, 1689, 1900
-recovered snap_scaffold_900-snap.1-T1, internal, 3714, 3899
Couldn't classify 1686, 1900
Couldn't classify 3714, 3891
Sorry, prediction pasa_asmbl_55792.p1 fails validation.
(CAG)	 TC	1686-1900	GT	AAG
(GAA)	 AG	3714-3891	GA	AGG

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2318, rend_intergenic: 423  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 4006
-exon list size: 40


building trellis

2.4    
4.8    
7.1    
9.5    
11.9    
14.3    
16.7    
19.0    
21.4    
23.8    
26.2    
28.6    
31.0    
33.3    
35.7    
38.1    
40.5    
42.9    
45.2    
47.6    
50.0    
52.4    
54.8    
57.1    
59.5    
61.9    
64.3    
66.7    
69.0    
71.4    
73.8    
76.2    
78.6    
81.0    
83.3    
85.7    
88.1    
90.5    
92.9    
95.2    
97.6    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 2318, rend_intergenic: 423  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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