-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_297

-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 8231, 8377
Sorry, prediction snap_scaffold_297-snap.3-T1 fails validation.
(ATG)	 GA	6413-6445	GT	AGG
(GGA)	 AG	7778-7846	GT	TGG
(GGC)	 AG	8231-8377	GT	CTG
-recovered snap_scaffold_297-snap.3-T1, initial, 6413, 6445
-recovered snap_scaffold_297-snap.3-T1, internal, 7778, 7846
-recovered snap_scaffold_297-snap.3-T1, internal, 8231, 8377
Valid prediction for GeneMark_model.107218_t
Couldn't classify 8231, 8391
Sorry, prediction Augustus_model.g40993.t1 fails validation.
(ATG)	 GA	6413-6445	GT	AGG
(GGA)	 AG	7778-7846	GT	TGG
(GGC)	 AG	8231-8391	GT	CCG
-recovered Augustus_model.g40993.t1, initial, 6413, 6445
-recovered Augustus_model.g40993.t1, internal, 7778, 7846
-recovered Augustus_model.g40993.t1, internal, 8231, 8391
Valid prediction for GlimmerHMM_glimmerT_61653-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61653-T1 979-1160-terminal-1 is invalid.
Valid prediction for snap_scaffold_297-snap.2-T1
Valid prediction for GeneMark_model.107220_t
Valid prediction for Augustus_model.g40992.t1
Couldn't classify 8231, 8377
Sorry, prediction GlimmerHMM_glimmerT_61654-T1 fails validation.
(ATG)	 AG	1473-1624	GT	GGG
(CCA)	 AG	2594-2710	GT	GGG
(CTC)	 AG	6887-6917	GT	TCG
(GGA)	 AG	7778-7846	GT	TGG
(GGC)	 AG	8231-8377	GT	CTG
-recovered GlimmerHMM_glimmerT_61654-T1, initial, 1473, 1624
-recovered GlimmerHMM_glimmerT_61654-T1, internal, 1473, 1624
-recovered GlimmerHMM_glimmerT_61654-T1, internal, 2594, 2710
-recovered GlimmerHMM_glimmerT_61654-T1, internal, 6887, 6917
-recovered GlimmerHMM_glimmerT_61654-T1, internal, 7778, 7846
-recovered GlimmerHMM_glimmerT_61654-T1, internal, 8231, 8377

-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 7473, 7551
Sorry, prediction snap_scaffold_297-snap.1-T1 fails validation.
(ATG)	 CG	4218-4257	GT	TGG
(CCA)	 AG	4560-4639	GT	CGG
(GCA)	 AG	5383-5445	GT	TGG
(GCA)	 AG	6469-6531	GT	TGG
(CCT)	 AG	7473-7551	GT	CGG
-recovered snap_scaffold_297-snap.1-T1, initial, 4218, 4257
-recovered snap_scaffold_297-snap.1-T1, internal, 4560, 4639
-recovered snap_scaffold_297-snap.1-T1, internal, 5383, 5445
-recovered snap_scaffold_297-snap.1-T1, internal, 6469, 6531
-recovered snap_scaffold_297-snap.1-T1, internal, 7473, 7551
Valid prediction for GeneMark_model.107219_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4242, rend_intergenic: 1215  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 8459
-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 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 4242, rend_intergenic: 1215  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