-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_78

-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_78-snap.4-T1
Valid prediction for GlimmerHMM_glimmerT_59711-T1
add_exon() Sorry, GlimmerHMM_glimmerT_59711-T1 656-1016-terminal-1 is invalid.
Valid prediction for snap_scaffold_78-snap.2-T1
add_exon() Sorry, snap_scaffold_78-snap.2-T1 656-1016-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 8239, 8580
Couldn't classify 9578, 9691
Sorry, prediction pasa_asmbl_51663.p1 fails validation.
(AAG)	 CC	8239-8580	GT	AGG
(GTA)	 AG	9578-9691	GC	AGG
-recovered pasa_asmbl_51663.p1, internal, 9578, 9691
Valid prediction for GlimmerHMM_glimmerT_59714-T1
Valid prediction for snap_scaffold_78-snap.7-T1
Valid prediction for snap_scaffold_78-snap.6-T1
Valid prediction for GlimmerHMM_glimmerT_59713-T1
Valid prediction for snap_scaffold_78-snap.3-T1
Couldn't classify 10649, 11209
Sorry, prediction pasa_asmbl_51661.p1 fails validation.
(CTG)	 CC	10649-11209	GA	AGG
Couldn't classify 9821, 10624
Sorry, prediction pasa_asmbl_51662.p1 fails validation.
(AAG)	 AC	9821-10624	AG	AGA
Couldn't classify 1319, 1423
Sorry, prediction snap_scaffold_78-snap.8-T1 fails validation.
(AGG)	 AG	1319-1423	GT	TAG
(ATC)	 AG	2674-2758	GT	AGG
(GTG)	 AG	2934-3094	AA	GAA
add_exon() Sorry, snap_scaffold_78-snap.8-T1 2674-2758-terminal-3 is invalid.
-recovered snap_scaffold_78-snap.8-T1, terminal, 2674, 2758
-recovered snap_scaffold_78-snap.8-T1, terminal, 2934, 3094
-recovered snap_scaffold_78-snap.8-T1, internal, 1319, 1423
-recovered snap_scaffold_78-snap.8-T1, internal, 2674, 2758
Valid prediction for snap_scaffold_78-snap.5-T1
Couldn't classify 18264, 19016
Sorry, prediction pasa_asmbl_51660.p1 fails validation.
(TCC)	 CT	18264-19016	GC	AAG
Valid prediction for GlimmerHMM_glimmerT_59712-T1
Couldn't classify 20722, 20894
Sorry, prediction snap_scaffold_78-snap.1-T1 fails validation.
(ATG)	 TG	19772-19785	GT	CTG
(AGG)	 AG	20722-20894	GT	CAG
-recovered snap_scaffold_78-snap.1-T1, initial, 19772, 19785
-recovered snap_scaffold_78-snap.1-T1, internal, 20722, 20894
Valid prediction for GlimmerHMM_glimmerT_59716-T1
Valid prediction for Augustus_model.g39569.t1
Valid prediction for GlimmerHMM_glimmerT_59715-T1
Valid prediction for Augustus_model.g39568.t1
Valid prediction for GlimmerHMM_glimmerT_59717-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 1126, rend_intergenic: 656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 4288, rend_intergenic: 3660  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7945, rend_intergenic: 6026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 20897
-exon list size: 38


building trellis

2.5    
5.0    
7.5    
10.0    
12.5    
15.0    
17.5    
20.0    
22.5    
25.0    
27.5    
30.0    
32.5    
35.0    
37.5    
40.0    
42.5    
45.0    
47.5    
50.0    
52.5    
55.0    
57.5    
60.0    
62.5    
65.0    
67.5    
70.0    
72.5    
75.0    
77.5    
80.0    
82.5    
85.0    
87.5    
90.0    
92.5    
95.0    
97.5    
-found 6 predictions from path traversal
Error with prediction: snap lend_intergenic: 1126, rend_intergenic: 656  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 4288, rend_intergenic: 3660  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7945, rend_intergenic: 6026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 5 predictions persist after filtering for low support