-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_401

-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 2401, 2886
Sorry, prediction pasa_asmbl_43646.p1 fails validation.
(CTC)	 AC	2401-2886	AG	AGA
Valid prediction for GlimmerHMM_glimmerT_61800-T1
Valid prediction for Augustus_model.g41073.t1
Couldn't classify 514, 783
Sorry, prediction pasa_asmbl_43645.p1 fails validation.
(CTC)	 CT	514-783	GT	AGG
(AAC)	 AG	1342-1569	TA	GAT
-recovered pasa_asmbl_43645.p1, terminal, 1342, 1569
Valid prediction for GlimmerHMM_glimmerT_61799-T1
Valid prediction for Augustus_model.g41074.t1
Couldn't classify 550, 783
Sorry, prediction snap_scaffold_401-snap.1-T1 fails validation.
(CGC)	 AG	550-783	GT	AGG
(TAC)	 AG	1411-1501	GT	AGG
(GAC)	 AG	2193-2215	GT	ATG
(CTC)	 AG	2368-2886	AG	AGA
-recovered snap_scaffold_401-snap.1-T1, terminal, 2368, 2886
-recovered snap_scaffold_401-snap.1-T1, internal, 550, 783
-recovered snap_scaffold_401-snap.1-T1, internal, 1411, 1501
-recovered snap_scaffold_401-snap.1-T1, internal, 2193, 2215
Couldn't classify 5936, 6559
Sorry, prediction GeneMark_model.107535_t fails validation.
(ATG)	 TC	4964-5539	GT	AGG
(AGC)	 AG	5936-6559	GT	AGG
-recovered GeneMark_model.107535_t, initial, 4964, 5539
-recovered GeneMark_model.107535_t, internal, 5936, 6559
Valid prediction for snap_scaffold_401-snap.3-T1
Couldn't classify 550, 783
Sorry, prediction Augustus_model.g41071.t1 fails validation.
(CGC)	 AG	550-783	GT	AGG
(AAC)	 AG	1342-1501	GT	AGG
(TCT)	 AG	2156-2215	GT	ATG
(ATT)	 AG	2357-2364	CA	GAC
-recovered Augustus_model.g41071.t1, terminal, 2357, 2364
-recovered Augustus_model.g41071.t1, internal, 550, 783
-recovered Augustus_model.g41071.t1, internal, 1342, 1501
-recovered Augustus_model.g41071.t1, internal, 2156, 2215

-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 7080, 7255
Sorry, prediction GeneMark_model.107532_t fails validation.
(ATG)	 GA	6810-6985	GT	GAG
(AGG)	 AG	7008-7052	GT	GTG
(AGA)	 AG	7080-7255	GT	AAG
-recovered GeneMark_model.107532_t, initial, 6810, 6985
-recovered GeneMark_model.107532_t, internal, 7008, 7052
-recovered GeneMark_model.107532_t, internal, 7080, 7255
Valid prediction for Augustus_model.g41072.t1
Valid prediction for GeneMark_model.107533_t
Valid prediction for GeneMark_model.107534_t
Valid prediction for snap_scaffold_401-snap.2-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2886, rend_intergenic: 1375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7275
-exon list size: 45


building trellis

2.1    
4.3    
6.4    
8.5    
10.6    
12.8    
14.9    
17.0    
19.1    
21.3    
23.4    
25.5    
27.7    
29.8    
31.9    
34.0    
36.2    
38.3    
40.4    
42.6    
44.7    
46.8    
48.9    
51.1    
53.2    
55.3    
57.4    
59.6    
61.7    
63.8    
66.0    
68.1    
70.2    
72.3    
74.5    
76.6    
78.7    
80.9    
83.0    
85.1    
87.2    
89.4    
91.5    
93.6    
95.7    
97.9    
-found 4 predictions from path traversal
Error with prediction: snap lend_intergenic: 2886, rend_intergenic: 1375  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 3 predictions persist after filtering for low support