-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_101

-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_101-snap.3-T1
Couldn't classify 274, 324
Sorry, prediction snap_scaffold_101-snap.1-T1 fails validation.
(ATC)	 AG	274-324	GT	AGG
(TGG)	 AG	697-878	GT	GGG
(CTA)	 AG	1721-1744	TT	AAT
-recovered snap_scaffold_101-snap.1-T1, terminal, 1721, 1744
-recovered snap_scaffold_101-snap.1-T1, internal, 274, 324
-recovered snap_scaffold_101-snap.1-T1, internal, 697, 878

-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: -)Valid prediction for CodingQuarry_transcript_5702-T1
Valid prediction for Augustus_model.g39613.t1
Valid prediction for snap_scaffold_101-snap.2-T1
Couldn't classify 15524, 15652
Sorry, prediction Augustus_model.g39612.t1 fails validation.
(ATG)	 CC	14947-15133	GT	AGG
(GAA)	 AG	15524-15652	GT	AGG
-recovered Augustus_model.g39612.t1, initial, 14947, 15133
-recovered Augustus_model.g39612.t1, internal, 15524, 15652
Couldn't classify 60, 309
Sorry, prediction snap_scaffold_101-snap.4-T1 fails validation.
(CAC)	 AG	60-309	GT	CTG
(CAC)	 AG	404-559	GT	CTG
(GAG)	 AG	7613-7772	TA	GAT
-recovered snap_scaffold_101-snap.4-T1, terminal, 7613, 7772
-recovered snap_scaffold_101-snap.4-T1, internal, 60, 309
-recovered snap_scaffold_101-snap.4-T1, internal, 404, 559
Valid prediction for GlimmerHMM_glimmerT_59783-T1
Valid prediction for GlimmerHMM_glimmerT_59785-T1
add_exon() Sorry, GlimmerHMM_glimmerT_59785-T1 7613-7772-terminal-1 is invalid.
Valid prediction for GlimmerHMM_glimmerT_59782-T1
Valid prediction for GlimmerHMM_glimmerT_59784-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7737, rend_intergenic: 2716  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 15854
-exon list size: 34


building trellis

2.8    
5.6    
8.3    
11.1    
13.9    
16.7    
19.4    
22.2    
25.0    
27.8    
30.6    
33.3    
36.1    
38.9    
41.7    
44.4    
47.2    
50.0    
52.8    
55.6    
58.3    
61.1    
63.9    
66.7    
69.4    
72.2    
75.0    
77.8    
80.6    
83.3    
86.1    
88.9    
91.7    
94.4    
97.2    
-found 3 predictions from path traversal
Error with prediction: snap lend_intergenic: 7737, rend_intergenic: 2716  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