-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_162

-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 3736, 3828
Couldn't classify 4372, 4605
Sorry, prediction pasa_asmbl_17602.p1 fails validation.
(TAC)	 GG	3736-3828	GT	AGG
(CTG)	 AG	4372-4605	TG	GGT
Couldn't classify 11331, 11644
Sorry, prediction snap_scaffold_162-snap.4-T1 fails validation.
(ATG)	 GG	10253-10528	GT	AGG
(TAT)	 AG	11331-11644	GT	AGG
-recovered snap_scaffold_162-snap.4-T1, initial, 10253, 10528
-recovered snap_scaffold_162-snap.4-T1, internal, 11331, 11644
Couldn't classify 366, 467
Sorry, prediction Augustus_model.g39693.t1 fails validation.
(GGT)	 AG	366-467	GT	AGG
(GAG)	 AG	761-880	GT	AGG
(ATG)	 AG	3730-3828	GT	AGG
(CTG)	 AG	4372-4524	GT	TGG
(AGC)	 AG	6363-6451	GT	AGG
(CCT)	 AG	8191-8280	GT	AAG
(TGA)	 AG	10598-10642	GT	AGG
(CAC)	 AG	11378-11648	GG	GAG
-recovered Augustus_model.g39693.t1, initial, 3730, 3828
-recovered Augustus_model.g39693.t1, terminal, 11378, 11648
-recovered Augustus_model.g39693.t1, internal, 366, 467
-recovered Augustus_model.g39693.t1, internal, 761, 880
-recovered Augustus_model.g39693.t1, internal, 3730, 3828
-recovered Augustus_model.g39693.t1, internal, 4372, 4524
-recovered Augustus_model.g39693.t1, internal, 6363, 6451
-recovered Augustus_model.g39693.t1, internal, 8191, 8280
-recovered Augustus_model.g39693.t1, internal, 10598, 10642
Couldn't classify 366, 467
Sorry, prediction snap_scaffold_162-snap.2-T1 fails validation.
(GGT)	 AG	366-467	GT	AGG
(GAG)	 AG	761-880	GT	AGG
(ATG)	 AG	3730-3828	GT	AGG
(CTG)	 AG	4372-4524	GT	TGG
(AGC)	 AG	6363-6451	GT	AGG
(GCT)	 AG	9572-10136	GG	GAG
-recovered snap_scaffold_162-snap.2-T1, initial, 3730, 3828
-recovered snap_scaffold_162-snap.2-T1, terminal, 9572, 10136
-recovered snap_scaffold_162-snap.2-T1, internal, 366, 467
-recovered snap_scaffold_162-snap.2-T1, internal, 761, 880
-recovered snap_scaffold_162-snap.2-T1, internal, 3730, 3828
-recovered snap_scaffold_162-snap.2-T1, internal, 4372, 4524
-recovered snap_scaffold_162-snap.2-T1, internal, 6363, 6451
Valid prediction for GlimmerHMM_glimmerT_59932-T1

-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_162-snap.3-T1
Sorry, intron length (9) is less than minimum required (10)
Couldn't classify 11355, 11654
Sorry, prediction snap_scaffold_162-snap.1-T1 fails validation.
(ATG)	 AC	6327-6958	GT	AGG
(TCT)	 AG	7210-7367	GT	AAG
(TTC)	 AG	10821-10905	GT	ATG
(GAG)	 AG	11355-11654	GT	GGG
-recovered snap_scaffold_162-snap.1-T1, initial, 6327, 6958
add_exon() Sorry, snap_scaffold_162-snap.1-T1 7210-7367-terminal-2 is invalid.
-recovered snap_scaffold_162-snap.1-T1, terminal, 7210, 7367
-recovered snap_scaffold_162-snap.1-T1, internal, 7210, 7367
-recovered snap_scaffold_162-snap.1-T1, internal, 10821, 10905
-recovered snap_scaffold_162-snap.1-T1, internal, 11355, 11654
Valid prediction for GlimmerHMM_glimmerT_59933-T1
add_exon() Sorry, GlimmerHMM_glimmerT_59933-T1 103-345-initial-1 is invalid.

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5387, rend_intergenic: 366  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10136, rend_intergenic: 5447  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 11713
-exon list size: 31


building trellis

3.0    
6.1    
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18.2    
21.2    
24.2    
27.3    
30.3    
33.3    
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39.4    
42.4    
45.5    
48.5    
51.5    
54.5    
57.6    
60.6    
63.6    
66.7    
69.7    
72.7    
75.8    
78.8    
81.8    
84.8    
87.9    
90.9    
93.9    
97.0    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 5387, rend_intergenic: 366  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10136, rend_intergenic: 5447  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