-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_2001

-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 164, 325
Couldn't classify 1528, 1631
Sorry, prediction Augustus_model.g40725.t1 fails validation.
(GAT)	 AG	164-325	GT	AGG
(GTC)	 AG	1138-1293	GT	AGG
(GTC)	 AG	1528-1631	GT	TGG
-recovered Augustus_model.g40725.t1, internal, 164, 325
-recovered Augustus_model.g40725.t1, internal, 1138, 1293
-recovered Augustus_model.g40725.t1, internal, 1528, 1631
Couldn't classify 1138, 1293
Sorry, prediction GlimmerHMM_glimmerT_61424-T1 fails validation.
(ATG)	 AA	463-491	GT	GGG
(GTC)	 AG	1138-1293	GT	AGG
-recovered GlimmerHMM_glimmerT_61424-T1, initial, 463, 491
-recovered GlimmerHMM_glimmerT_61424-T1, internal, 1138, 1293
Valid prediction for GlimmerHMM_glimmerT_61423-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61423-T1 164-329-terminal-1 is invalid.
Couldn't classify 164, 325
Couldn't classify 1528, 1631
Sorry, prediction snap_scaffold_2001-snap.1-T1 fails validation.
(GAT)	 AG	164-325	GT	AGG
(GTC)	 AG	1138-1293	GT	AGG
(GTC)	 AG	1528-1631	GT	TGG
-recovered snap_scaffold_2001-snap.1-T1, internal, 164, 325
-recovered snap_scaffold_2001-snap.1-T1, internal, 1138, 1293
-recovered snap_scaffold_2001-snap.1-T1, internal, 1528, 1631
Couldn't classify 147, 325
Couldn't classify 1528, 1609
Sorry, prediction pasa_asmbl_27241.p1 fails validation.
(GAC)	 GC	147-325	GT	AGG
(GTC)	 AG	1138-1293	GT	AGG
(GTC)	 AG	1528-1609	AT	GCA
-recovered pasa_asmbl_27241.p1, internal, 1138, 1293

-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 409, 547
Couldn't classify 1365, 1457
Sorry, prediction snap_scaffold_2001-snap.2-T1 fails validation.
(CTT)	 AG	409-547	GT	AGG
(GGC)	 AG	1365-1457	GT	TGG
-recovered snap_scaffold_2001-snap.2-T1, internal, 409, 547
-recovered snap_scaffold_2001-snap.2-T1, internal, 1365, 1457

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 1631, rend_intergenic: 222  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 1678
-exon list size: 8


building trellis

10.0    
20.0    
30.0    
40.0    
50.0    
60.0    
70.0    
80.0    
90.0    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 1631, rend_intergenic: 222  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