-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_524

-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 1494, 1600
Couldn't classify 5157, 5248
Sorry, prediction snap_scaffold_524-snap.2-T1 fails validation.
(AGG)	 AG	1494-1600	GT	GAG
(ATG)	 AG	1890-1910	GT	AGG
(ACC)	 AG	1952-2050	GT	AAG
(GGT)	 AG	3550-3657	GT	CGG
(AGG)	 AG	5157-5248	GT	CTG
-recovered snap_scaffold_524-snap.2-T1, initial, 1890, 1910
-recovered snap_scaffold_524-snap.2-T1, internal, 1494, 1600
-recovered snap_scaffold_524-snap.2-T1, internal, 1890, 1910
-recovered snap_scaffold_524-snap.2-T1, internal, 1952, 2050
-recovered snap_scaffold_524-snap.2-T1, internal, 3550, 3657
-recovered snap_scaffold_524-snap.2-T1, internal, 5157, 5248

-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 261, 425
Sorry, prediction GlimmerHMM_glimmerT_60450-T1 fails validation.
(GGC)	 AG	261-425	GT	CAG
(GTT)	 AG	641-707	GT	AGG
(TGT)	 AG	812-997	GT	CGG
(GTG)	 AG	1646-1738	GT	GGG
(CCT)	 AG	2289-2342	GT	AGG
(GCG)	 AG	2439-2589	GT	AGG
(ATG)	 AG	2852-2988	GT	AGG
(TTT)	 AG	4108-4257	GA	AGG
add_exon() Sorry, GlimmerHMM_glimmerT_60450-T1 2852-2988-initial-1 is invalid.
-recovered GlimmerHMM_glimmerT_60450-T1, initial, 2852, 2988
-recovered GlimmerHMM_glimmerT_60450-T1, terminal, 4108, 4257
-recovered GlimmerHMM_glimmerT_60450-T1, internal, 261, 425
-recovered GlimmerHMM_glimmerT_60450-T1, internal, 641, 707
-recovered GlimmerHMM_glimmerT_60450-T1, internal, 812, 997
-recovered GlimmerHMM_glimmerT_60450-T1, internal, 1646, 1738
-recovered GlimmerHMM_glimmerT_60450-T1, internal, 2289, 2342
-recovered GlimmerHMM_glimmerT_60450-T1, internal, 2439, 2589
-recovered GlimmerHMM_glimmerT_60450-T1, internal, 2852, 2988
Couldn't classify 261, 425
Couldn't classify 5679, 5825
Sorry, prediction Augustus_model.g40017.t1 fails validation.
(GGC)	 AG	261-425	GT	CAG
(GTT)	 AG	641-707	GT	AGG
(TGT)	 AG	812-997	GT	CGG
(GTA)	 AG	1262-1348	GT	AGG
(GTG)	 AG	1646-1738	GT	GGG
(CCT)	 AG	2289-2342	GT	AGG
(GCG)	 AG	2439-2589	GT	AGG
(ATG)	 AG	2852-2988	GT	AGG
(GAG)	 AG	3893-3970	GT	AGG
(TTT)	 AG	4108-4253	GT	AGG
(TGC)	 AG	4535-4652	GT	AGG
(GCT)	 AG	4806-5028	GT	AGG
(GTG)	 AG	5296-5444	GT	AGG
(GAG)	 AG	5679-5825	GT	AGG
add_exon() Sorry, Augustus_model.g40017.t1 2852-2988-initial-1 is invalid.
-recovered Augustus_model.g40017.t1, initial, 2852, 2988
-recovered Augustus_model.g40017.t1, internal, 261, 425
-recovered Augustus_model.g40017.t1, internal, 641, 707
-recovered Augustus_model.g40017.t1, internal, 812, 997
-recovered Augustus_model.g40017.t1, internal, 1262, 1348
-recovered Augustus_model.g40017.t1, internal, 1646, 1738
-recovered Augustus_model.g40017.t1, internal, 2289, 2342
-recovered Augustus_model.g40017.t1, internal, 2439, 2589
-recovered Augustus_model.g40017.t1, internal, 2852, 2988
-recovered Augustus_model.g40017.t1, internal, 3893, 3970
-recovered Augustus_model.g40017.t1, internal, 4108, 4253
-recovered Augustus_model.g40017.t1, internal, 4535, 4652
-recovered Augustus_model.g40017.t1, internal, 4806, 5028
-recovered Augustus_model.g40017.t1, internal, 5296, 5444
-recovered Augustus_model.g40017.t1, internal, 5679, 5825
Valid prediction for GlimmerHMM_glimmerT_60449-T1
Couldn't classify 261, 425
Couldn't classify 5745, 5825
Sorry, prediction snap_scaffold_524-snap.1-T1 fails validation.
(GGC)	 AG	261-425	GT	CAG
(GTT)	 AG	641-707	GT	AGG
(TGT)	 AG	812-997	GT	CGG
(GTA)	 AG	1262-1348	GT	AGG
(GTG)	 AG	1646-1738	GT	GGG
(CCT)	 AG	2289-2342	GT	AGG
(GCG)	 AG	2439-2589	GT	AGG
(ATG)	 AG	2852-2988	GT	AGG
(GGG)	 AG	3250-3509	GT	AGG
(GAG)	 AG	3913-3970	GT	AGG
(TTT)	 AG	4108-4253	GT	AGG
(TGC)	 AG	4535-4652	GT	AGG
(GCT)	 AG	4806-5028	GT	AGG
(GTG)	 AG	5296-5444	GT	AGG
(GCT)	 AG	5745-5825	GT	AGG
add_exon() Sorry, snap_scaffold_524-snap.1-T1 2852-2988-initial-1 is invalid.
-recovered snap_scaffold_524-snap.1-T1, initial, 2852, 2988
add_exon() Sorry, snap_scaffold_524-snap.1-T1 3250-3509-terminal-2 is invalid.
-recovered snap_scaffold_524-snap.1-T1, terminal, 3250, 3509
-recovered snap_scaffold_524-snap.1-T1, internal, 261, 425
-recovered snap_scaffold_524-snap.1-T1, internal, 641, 707
-recovered snap_scaffold_524-snap.1-T1, internal, 812, 997
-recovered snap_scaffold_524-snap.1-T1, internal, 1262, 1348
-recovered snap_scaffold_524-snap.1-T1, internal, 1646, 1738
-recovered snap_scaffold_524-snap.1-T1, internal, 2289, 2342
-recovered snap_scaffold_524-snap.1-T1, internal, 2439, 2589
-recovered snap_scaffold_524-snap.1-T1, internal, 2852, 2988
-recovered snap_scaffold_524-snap.1-T1, internal, 3250, 3509
-recovered snap_scaffold_524-snap.1-T1, internal, 3913, 3970
-recovered snap_scaffold_524-snap.1-T1, internal, 4108, 4253
-recovered snap_scaffold_524-snap.1-T1, internal, 4535, 4652
-recovered snap_scaffold_524-snap.1-T1, internal, 4806, 5028
-recovered snap_scaffold_524-snap.1-T1, internal, 5296, 5444
-recovered snap_scaffold_524-snap.1-T1, internal, 5745, 5825

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5856, rend_intergenic: 1494  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 6116
-exon list size: 48


building trellis

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-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 5856, rend_intergenic: 1494  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