-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_154

-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 GlimmerHMM_glimmerT_61410-T1
Valid prediction for GeneMark_model.106753_t
Couldn't classify 128, 265
Couldn't classify 11970, 12033
Sorry, prediction snap_scaffold_154-snap.1-T1 fails validation.
(CTC)	 AG	128-265	GT	AAG
(GAG)	 AG	3138-3555	GT	CTG
(GGG)	 AG	6184-6269	GT	CAG
(GCC)	 AG	6337-6361	GT	AGG
(GGG)	 AG	8475-8623	GT	CAG
(GAC)	 AG	8647-8776	GT	AGG
(ACT)	 AG	10874-11399	GT	AGG
(TCC)	 AG	11970-12033	GT	CAG
-recovered snap_scaffold_154-snap.1-T1, internal, 128, 265
-recovered snap_scaffold_154-snap.1-T1, internal, 3138, 3555
-recovered snap_scaffold_154-snap.1-T1, internal, 6184, 6269
-recovered snap_scaffold_154-snap.1-T1, internal, 6337, 6361
-recovered snap_scaffold_154-snap.1-T1, internal, 8475, 8623
-recovered snap_scaffold_154-snap.1-T1, internal, 8647, 8776
-recovered snap_scaffold_154-snap.1-T1, internal, 10874, 11399
-recovered snap_scaffold_154-snap.1-T1, internal, 11970, 12033
Valid prediction for GlimmerHMM_glimmerT_61409-T1
add_exon() Sorry, GlimmerHMM_glimmerT_61409-T1 8472-8755-terminal-1 is invalid.
Valid prediction for GeneMark_model.106755_t
Valid prediction for GeneMark_model.106757_t

-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 11871, 12007
Sorry, prediction Augustus_model.g40842.t1 fails validation.
(ATG)	 GC	11460-11535	GT	AGG
(CCT)	 AG	11871-12007	GT	AGG
-recovered Augustus_model.g40842.t1, initial, 11460, 11535
-recovered Augustus_model.g40842.t1, internal, 11871, 12007
Couldn't classify 11871, 12202
Sorry, prediction GeneMark_model.106752_t fails validation.
(ATG)	 GC	11460-11535	GT	AGG
(CCT)	 AG	11871-12202	GC	GGG
-recovered GeneMark_model.106752_t, initial, 11460, 11535
-recovered GeneMark_model.106752_t, internal, 11871, 12202
Valid prediction for Augustus_model.g40843.t1
Valid prediction for GeneMark_model.106756_t
Couldn't classify 11, 36
Sorry, prediction GeneMark_model.106758_t fails validation.
(GGG)	 AG	11-36	GT	AGG
(CCC)	 AG	213-230	GT	ATG
(GAG)	 AG	253-267	GT	GGG
(GAG)	 AG	308-337	GT	ATG
(AGG)	 AG	364-415	GT	ATG
(AAA)	 AG	950-987	GT	TGG
(TCT)	 AG	1032-1043	GT	TGG
(TCT)	 AG	1104-1119	AA	AGA
-recovered GeneMark_model.106758_t, terminal, 1104, 1119
-recovered GeneMark_model.106758_t, internal, 11, 36
-recovered GeneMark_model.106758_t, internal, 213, 230
-recovered GeneMark_model.106758_t, internal, 253, 267
-recovered GeneMark_model.106758_t, internal, 308, 337
-recovered GeneMark_model.106758_t, internal, 364, 415
-recovered GeneMark_model.106758_t, internal, 950, 987
-recovered GeneMark_model.106758_t, internal, 1032, 1043
Valid prediction for GeneMark_model.106754_t
Couldn't classify 213, 320
Couldn't classify 11871, 12007
Sorry, prediction snap_scaffold_154-snap.2-T1 fails validation.
(CCC)	 AG	213-320	GT	ATG
(AAA)	 AG	972-1137	GT	TGG
(GCA)	 AG	3472-3581	GT	AGG
(GGG)	 AG	3758-3875	GT	GGG
(AGT)	 AG	5603-5749	GT	CGG
(AAC)	 AG	11485-11535	GT	AGG
(CCT)	 AG	11871-12007	GT	AGG
-recovered snap_scaffold_154-snap.2-T1, internal, 213, 320
-recovered snap_scaffold_154-snap.2-T1, internal, 972, 1137
-recovered snap_scaffold_154-snap.2-T1, internal, 3472, 3581
-recovered snap_scaffold_154-snap.2-T1, internal, 3758, 3875
-recovered snap_scaffold_154-snap.2-T1, internal, 5603, 5749
-recovered snap_scaffold_154-snap.2-T1, internal, 11485, 11535
-recovered snap_scaffold_154-snap.2-T1, internal, 11871, 12007

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12033, rend_intergenic: 209  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 12215
-exon list size: 91


building trellis

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97.8    
98.9    
-found 3 predictions from path traversal
Error with prediction: snap lend_intergenic: 12033, rend_intergenic: 209  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