-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_112

-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_112-snap.3-T1
Couldn't classify 14055, 14384
Sorry, prediction snap_scaffold_112-snap.5-T1 fails validation.
(ATG)	 AG	11043-11226	GT	GAG
(GGG)	 AG	12091-12177	GT	AGG
(TTG)	 AG	13103-13287	GT	GGG
(GGA)	 AG	14055-14384	GT	AAG
-recovered snap_scaffold_112-snap.5-T1, initial, 11043, 11226
-recovered snap_scaffold_112-snap.5-T1, internal, 11043, 11226
-recovered snap_scaffold_112-snap.5-T1, internal, 12091, 12177
-recovered snap_scaffold_112-snap.5-T1, internal, 13103, 13287
-recovered snap_scaffold_112-snap.5-T1, internal, 14055, 14384
Valid prediction for snap_scaffold_112-snap.1-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 Augustus_model.g39629.t1
Couldn't classify 680, 936
Sorry, prediction snap_scaffold_112-snap.4-T1 fails validation.
(AGA)	 AG	680-936	GT	ATG
(GGC)	 AG	1776-1895	GT	AGG
(GAA)	 AG	2340-2356	GT	AGG
(TAG)	 AG	5311-5581	GT	AAG
(AGG)	 AG	5840-5869	CT	AAC
-recovered snap_scaffold_112-snap.4-T1, terminal, 5840, 5869
-recovered snap_scaffold_112-snap.4-T1, internal, 680, 936
-recovered snap_scaffold_112-snap.4-T1, internal, 1776, 1895
-recovered snap_scaffold_112-snap.4-T1, internal, 2340, 2356
-recovered snap_scaffold_112-snap.4-T1, internal, 5311, 5581
Couldn't classify 679, 936
Couldn't classify 1776, 1895
Sorry, prediction pasa_asmbl_7401.p1 fails validation.
(GAG)	 CA	679-936	GT	ATG
(GGC)	 AG	1776-1895	GT	AGG
-recovered pasa_asmbl_7401.p1, internal, 1776, 1895
Couldn't classify 680, 936
Sorry, prediction GlimmerHMM_glimmerT_59810-T1 fails validation.
(AGA)	 AG	680-936	GT	ATG
(GGC)	 AG	1776-1895	GT	AGG
(TTC)	 AG	5459-5555	GT	AGG
(AGA)	 AG	9301-9620	CC	AAC
-recovered GlimmerHMM_glimmerT_59810-T1, terminal, 9301, 9620
-recovered GlimmerHMM_glimmerT_59810-T1, internal, 680, 936
-recovered GlimmerHMM_glimmerT_59810-T1, internal, 1776, 1895
-recovered GlimmerHMM_glimmerT_59810-T1, internal, 5459, 5555
Couldn't classify 11221, 11340
Sorry, prediction snap_scaffold_112-snap.2-T1 fails validation.
(ATG)	 AC	7530-7578	GT	AGG
(AGA)	 AG	9301-9557	GT	ATG
(GGC)	 AG	11221-11340	GT	AGG
-recovered snap_scaffold_112-snap.2-T1, initial, 7530, 7578
-recovered snap_scaffold_112-snap.2-T1, internal, 9301, 9557
-recovered snap_scaffold_112-snap.2-T1, internal, 11221, 11340
Couldn't classify 680, 936
Sorry, prediction Augustus_model.g39630.t1 fails validation.
(AGA)	 AG	680-936	GT	ATG
(GGC)	 AG	1776-1895	GT	AGG
(ACC)	 AG	3628-3642	CT	GAC
-recovered Augustus_model.g39630.t1, terminal, 3628, 3642
-recovered Augustus_model.g39630.t1, internal, 680, 936
-recovered Augustus_model.g39630.t1, internal, 1776, 1895
Couldn't classify 9309, 9557
Couldn't classify 11221, 11340
Sorry, prediction pasa_asmbl_7402.p1 fails validation.
(GGG)	 CT	9309-9557	GT	ATG
(GGC)	 AG	11221-11340	GT	AGG
-recovered pasa_asmbl_7402.p1, internal, 11221, 11340

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8054, rend_intergenic: 3624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10979, rend_intergenic: 9095  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14284, rend_intergenic: 11043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 14963
-exon list size: 38


building trellis

2.5    
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95.0    
97.5    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 8054, rend_intergenic: 3624  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10979, rend_intergenic: 9095  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14284, rend_intergenic: 11043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 2 predictions persist after filtering for low support