-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_709

-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 525, 576
Sorry, prediction GeneMark_model.108237_t fails validation.
(CAC)	 AG	525-576	GT	ATG
(GAT)	 AG	600-671	GT	GGG
(GGG)	 AG	707-712	GT	GGG
(TAA)	 AG	733-849	GT	GAG
(GGC)	 AG	881-976	GT	GAG
(AGG)	 AG	1000-1017	GT	CGG
(GGA)	 AG	1044-1186	GT	AGG
(AAC)	 AG	1420-1438	GT	AGG
(GCT)	 AG	1696-1843	GT	AGG
(TCT)	 AG	1902-1947	GT	AGG
(GAG)	 AG	2991-3019	CA	AGC
-recovered GeneMark_model.108237_t, terminal, 2991, 3019
-recovered GeneMark_model.108237_t, internal, 525, 576
-recovered GeneMark_model.108237_t, internal, 600, 671
-recovered GeneMark_model.108237_t, internal, 707, 712
-recovered GeneMark_model.108237_t, internal, 733, 849
-recovered GeneMark_model.108237_t, internal, 881, 976
-recovered GeneMark_model.108237_t, internal, 1000, 1017
-recovered GeneMark_model.108237_t, internal, 1044, 1186
-recovered GeneMark_model.108237_t, internal, 1420, 1438
-recovered GeneMark_model.108237_t, internal, 1696, 1843
-recovered GeneMark_model.108237_t, internal, 1902, 1947

-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 50, 122
Couldn't classify 4755, 4839
Sorry, prediction snap_scaffold_709-snap.1-T1 fails validation.
(GTG)	 AG	50-122	GT	AGG
(GGG)	 AG	399-590	GT	ATG
(AAG)	 AG	817-899	GT	AGG
(ATC)	 AG	1012-1085	GT	CGG
(GAA)	 AG	2965-3061	GT	AGG
(ATT)	 AG	3754-3882	GT	CCG
(GCC)	 AG	4360-4433	GT	AAG
(GGT)	 AG	4755-4839	GT	TGG
-recovered snap_scaffold_709-snap.1-T1, internal, 50, 122
-recovered snap_scaffold_709-snap.1-T1, internal, 399, 590
-recovered snap_scaffold_709-snap.1-T1, internal, 817, 899
-recovered snap_scaffold_709-snap.1-T1, internal, 1012, 1085
-recovered snap_scaffold_709-snap.1-T1, internal, 2965, 3061
-recovered snap_scaffold_709-snap.1-T1, internal, 3754, 3882
-recovered snap_scaffold_709-snap.1-T1, internal, 4360, 4433
-recovered snap_scaffold_709-snap.1-T1, internal, 4755, 4839
Couldn't classify 399, 590
Couldn't classify 4778, 4839
Sorry, prediction Augustus_model.g41309.t1 fails validation.
(GGG)	 AG	399-590	GT	ATG
(AAG)	 AG	817-899	GT	AGG
(ATC)	 AG	1012-1085	GT	CGG
(GAA)	 AG	2965-3061	GT	AGG
(CGG)	 AG	3469-3546	GT	ACG
(ATT)	 AG	3754-3818	GT	TGG
(GCT)	 AG	4130-4198	GT	CAG
(GCC)	 AG	4360-4433	GT	AAG
(TGT)	 AG	4778-4839	GT	TGG
-recovered Augustus_model.g41309.t1, internal, 399, 590
-recovered Augustus_model.g41309.t1, internal, 817, 899
-recovered Augustus_model.g41309.t1, internal, 1012, 1085
-recovered Augustus_model.g41309.t1, internal, 2965, 3061
-recovered Augustus_model.g41309.t1, internal, 3469, 3546
-recovered Augustus_model.g41309.t1, internal, 3754, 3818
-recovered Augustus_model.g41309.t1, internal, 4130, 4198
-recovered Augustus_model.g41309.t1, internal, 4360, 4433
-recovered Augustus_model.g41309.t1, internal, 4778, 4839
Couldn't classify 399, 590
Sorry, prediction GlimmerHMM_glimmerT_62148-T1 fails validation.
(GGG)	 AG	399-590	GT	ATG
(AAG)	 AG	817-899	GT	AGG
(ATC)	 AG	1012-1085	GT	CGG
(GAA)	 AG	2965-3061	GT	AGG
(ATT)	 AG	3754-3818	GT	TGG
(GGT)	 AG	4755-4868	CC	GAC
-recovered GlimmerHMM_glimmerT_62148-T1, terminal, 4755, 4868
-recovered GlimmerHMM_glimmerT_62148-T1, internal, 399, 590
-recovered GlimmerHMM_glimmerT_62148-T1, internal, 817, 899
-recovered GlimmerHMM_glimmerT_62148-T1, internal, 1012, 1085
-recovered GlimmerHMM_glimmerT_62148-T1, internal, 2965, 3061
-recovered GlimmerHMM_glimmerT_62148-T1, internal, 3754, 3818
Couldn't classify 50, 122
Sorry, prediction GeneMark_model.108238_t fails validation.
(GTG)	 AG	50-122	GT	AGG
(GGG)	 AG	399-594	GG	AGG
-recovered GeneMark_model.108238_t, terminal, 399, 594
-recovered GeneMark_model.108238_t, internal, 50, 122

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

-building trellis in range 1 - 4898
-exon list size: 48


building trellis

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-found 1 predictions from path traversal
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support