-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/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 GeneMark_model.106439_t
Valid prediction for GeneMark_model.106433_t
Valid prediction for snap_scaffold_78-snap.3-T1
Valid prediction for GeneMark_model.106435_t
Valid prediction for GlimmerHMM_glimmerT_61213-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61213-T1 656-1016-terminal-1 is invalid.
Valid prediction for snap_scaffold_78-snap.1-T1
add_exon() Sorry, snap_scaffold_78-snap.1-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: -)Valid prediction for snap_scaffold_78-snap.5-T1
Valid prediction for snap_scaffold_78-snap.4-T1
Couldn't classify 10649, 11209
Sorry, prediction pasa_asmbl_51616.p1 fails validation.
(CTG)	 CC	10649-11209	GA	AGG
Couldn't classify 9821, 10624
Sorry, prediction pasa_asmbl_51617.p1 fails validation.
(AAG)	 AC	9821-10624	AG	AGA
Valid prediction for GeneMark_model.106434_t
Valid prediction for snap_scaffold_78-snap.2-T1
Valid prediction for GeneMark_model.106438_t
Valid prediction for Augustus_model.g40722.t1
Valid prediction for GlimmerHMM_glimmerT_61214-T1
Valid prediction for GeneMark_model.106437_t
Couldn't classify 18264, 19016
Sorry, prediction pasa_asmbl_51615.p1 fails validation.
(TCC)	 CT	18264-19016	GC	AAG
Valid prediction for GlimmerHMM_glimmerT_61216-T1
Couldn't classify 1319, 1423
Sorry, prediction snap_scaffold_78-snap.7-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.7-T1 2674-2758-terminal-3 is invalid.
-recovered snap_scaffold_78-snap.7-T1, terminal, 2674, 2758
-recovered snap_scaffold_78-snap.7-T1, terminal, 2934, 3094
-recovered snap_scaffold_78-snap.7-T1, internal, 1319, 1423
-recovered snap_scaffold_78-snap.7-T1, internal, 2674, 2758
Couldn't classify 6116, 6673
Sorry, prediction pasa_asmbl_51619.p1 fails validation.
(GAC)	 GA	6116-6673	CC	GAC
Valid prediction for GlimmerHMM_glimmerT_61217-T1
Valid prediction for snap_scaffold_78-snap.6-T1
Valid prediction for Augustus_model.g40723.t1
Valid prediction for GlimmerHMM_glimmerT_61215-T1
Couldn't classify 9578, 9691
Sorry, prediction pasa_asmbl_51618.p1 fails validation.
(ATG)	 AC	8302-8580	GT	AGG
(GTA)	 AG	9578-9691	GC	AGG
-recovered pasa_asmbl_51618.p1, initial, 8302, 8580
-recovered pasa_asmbl_51618.p1, internal, 9578, 9691
Valid prediction for GlimmerHMM_glimmerT_61218-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)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: 69


building trellis

1.4    
2.8    
4.2    
5.6    
7.0    
8.5    
9.9    
11.3    
12.7    
14.1    
15.5    
16.9    
18.3    
19.7    
21.1    
22.5    
23.9    
25.4    
26.8    
28.2    
29.6    
31.0    
32.4    
33.8    
35.2    
36.6    
38.0    
39.4    
40.8    
42.3    
43.7    
45.1    
46.5    
47.9    
49.3    
50.7    
52.1    
53.5    
54.9    
56.3    
57.7    
59.2    
60.6    
62.0    
63.4    
64.8    
66.2    
67.6    
69.0    
70.4    
71.8    
73.2    
74.6    
76.1    
77.5    
78.9    
80.3    
81.7    
83.1    
84.5    
85.9    
87.3    
88.7    
90.1    
91.5    
93.0    
94.4    
95.8    
97.2    
98.6    
-found 7 predictions from path traversal
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.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 6 predictions persist after filtering for low support