-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_17715665-17935686

-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_8-snap.3273-T1
Valid prediction for GlimmerHMM_glimmerT_21773-T1
Valid prediction for GeneMark_model.37057_t
Valid prediction for snap_scaffold_8-snap.3281-T1
Valid prediction for GeneMark_model.37067_t
Valid prediction for snap_scaffold_8-snap.3266-T1
Valid prediction for GeneMark_model.37059_t
Valid prediction for GeneMark_model.37080_t
Valid prediction for GeneMark_model.37056_t
Valid prediction for GlimmerHMM_glimmerT_21771-T1
Valid prediction for snap_scaffold_8-snap.3284-T1
Valid prediction for pasa_asmbl_52509.p1
Valid prediction for Augustus_model.g14588.t1
Valid prediction for GlimmerHMM_glimmerT_21778-T1
Valid prediction for pasa_asmbl_52492.p1
Valid prediction for GeneMark_model.37078_t
Valid prediction for snap_scaffold_8-snap.3294-T1
Valid prediction for GeneMark_model.37051_t
Valid prediction for GeneMark_model.37065_t
Valid prediction for Augustus_model.g14584.t1
Valid prediction for HiQ_model.g14590.t1
Valid prediction for GlimmerHMM_glimmerT_21764-T1
Valid prediction for CodingQuarry_transcript_59796-T1
Valid prediction for CodingQuarry_transcript_59794-T1
Valid prediction for snap_scaffold_8-snap.3270-T1
Valid prediction for GeneMark_model.37075_t
Valid prediction for snap_scaffold_8-snap.3274-T1
Valid prediction for GlimmerHMM_glimmerT_21770-T1
Valid prediction for CodingQuarry_transcript_59798-T1
Valid prediction for GlimmerHMM_glimmerT_21765-T1
Valid prediction for snap_scaffold_8-snap.3295-T1
Valid prediction for GeneMark_model.37062_t
Valid prediction for snap_scaffold_8-snap.3269-T1
Valid prediction for snap_scaffold_8-snap.3275-T1
Valid prediction for snap_scaffold_8-snap.3272-T1
Valid prediction for pasa_asmbl_52507.p1
Valid prediction for pasa_asmbl_52499.p1
Valid prediction for CodingQuarry_transcript_59795-T1
Valid prediction for GlimmerHMM_glimmerT_21757-T1
Valid prediction for GeneMark_model.37071_t
Valid prediction for CodingQuarry_transcript_59797-T1
Valid prediction for GlimmerHMM_glimmerT_21780-T1
Valid prediction for Augustus_model.g14585.t1
Valid prediction for snap_scaffold_8-snap.3277-T1
Valid prediction for GeneMark_model.37083_t
Valid prediction for GeneMark_model.37052_t
Valid prediction for GlimmerHMM_glimmerT_21759-T1
Valid prediction for CodingQuarry_transcript_59800-T1
Valid prediction for snap_scaffold_8-snap.3286-T1
Couldn't classify 43475, 43526
Couldn't classify 46673, 46744
Sorry, prediction pasa_asmbl_52488.p1 fails validation.
(CCA)	 CA	43475-43526	GT	TGG
(GGT)	 AG	44493-44593	GT	AGG
(AGC)	 AG	44709-44893	GT	AGG
(GTT)	 AG	45979-46136	GT	AAG
(CCA)	 AG	46411-46511	GT	AGG
(GTC)	 AG	46673-46744	GA	AAG
-recovered pasa_asmbl_52488.p1, internal, 44493, 44593
-recovered pasa_asmbl_52488.p1, internal, 44709, 44893
-recovered pasa_asmbl_52488.p1, internal, 45979, 46136
-recovered pasa_asmbl_52488.p1, internal, 46411, 46511
Valid prediction for GeneMark_model.37076_t
Valid prediction for GeneMark_model.37055_t
Valid prediction for GeneMark_model.37044_t
Valid prediction for Augustus_model.g14587.t1
Valid prediction for snap_scaffold_8-snap.3287-T1
Valid prediction for Augustus_model.g14582.t1
Valid prediction for snap_scaffold_8-snap.3301-T1
Valid prediction for GeneMark_model.37053_t
Valid prediction for snap_scaffold_8-snap.3278-T1
Valid prediction for GeneMark_model.37047_t
Couldn't classify 47800, 47960
Sorry, prediction pasa_asmbl_52489.p1 fails validation.
(AGC)	 CA	47800-47960	GT	AGG
(AAT)	 AG	48065-48205	GT	CGG
(GTT)	 AG	48307-48375	GT	AAG
(GAG)	 AG	48504-48668	GT	GGG
(AAA)	 AG	49358-49414	GT	CGG
(ACC)	 AG	49571-50066	CT	AAC
-recovered pasa_asmbl_52489.p1, terminal, 49571, 50066
-recovered pasa_asmbl_52489.p1, internal, 48065, 48205
-recovered pasa_asmbl_52489.p1, internal, 48307, 48375
-recovered pasa_asmbl_52489.p1, internal, 48504, 48668
-recovered pasa_asmbl_52489.p1, internal, 49358, 49414
Valid prediction for GlimmerHMM_glimmerT_21779-T1
Valid prediction for snap_scaffold_8-snap.3298-T1
Valid prediction for GlimmerHMM_glimmerT_21755-T1
Valid prediction for pasa_asmbl_52500.p2
Valid prediction for GeneMark_model.37081_t
Valid prediction for Augustus_model.g14583.t1
Valid prediction for snap_scaffold_8-snap.3291-T1
Valid prediction for GeneMark_model.37069_t
Valid prediction for Augustus_model.g14595.t1
Valid prediction for CodingQuarry_transcript_59799-T1
Valid prediction for GlimmerHMM_glimmerT_21753-T1
Valid prediction for GlimmerHMM_glimmerT_21768-T1
Valid prediction for GlimmerHMM_glimmerT_21781-T1
Valid prediction for HiQ_model.g14592.t1
Valid prediction for GlimmerHMM_glimmerT_21775-T1
Valid prediction for snap_scaffold_8-snap.3271-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.g14591.t1
Valid prediction for GeneMark_model.37073_t
Couldn't classify 53209, 53341
Couldn't classify 54947, 55077
Sorry, prediction pasa_asmbl_53502.p1 fails validation.
(ACC)	 CC	53209-53341	GT	AGG
(ACA)	 AG	54626-54826	GT	AGG
(GCT)	 AG	54947-55077	GG	ACG
-recovered pasa_asmbl_53502.p1, internal, 54626, 54826
Valid prediction for GlimmerHMM_glimmerT_21752-T1
Valid prediction for GeneMark_model.37064_t
Valid prediction for Augustus_model.g14581.t1
Valid prediction for GlimmerHMM_glimmerT_21772-T1
Valid prediction for GeneMark_model.37046_t
Valid prediction for snap_scaffold_8-snap.3285-T1
Valid prediction for GlimmerHMM_glimmerT_21766-T1
Valid prediction for GeneMark_model.37049_t
Valid prediction for GlimmerHMM_glimmerT_21756-T1
Couldn't classify 74950, 75321
Sorry, prediction pasa_asmbl_53500.p1 fails validation.
(GAG)	 TG	74950-75321	CT	AGC
Valid prediction for GeneMark_model.37072_t
Valid prediction for Augustus_model.g14594.t1
Valid prediction for GeneMark_model.37082_t
Valid prediction for snap_scaffold_8-snap.3297-T1
Valid prediction for GeneMark_model.37054_t
Valid prediction for snap_scaffold_8-snap.3299-T1
Valid prediction for GlimmerHMM_glimmerT_21776-T1
Valid prediction for Augustus_model.g14586.t1
Valid prediction for snap_scaffold_8-snap.3282-T1
Valid prediction for GeneMark_model.37061_t
Valid prediction for Augustus_model.g14596.t1
Valid prediction for GlimmerHMM_glimmerT_21758-T1
Valid prediction for GeneMark_model.37058_t
Valid prediction for GeneMark_model.37079_t
Valid prediction for snap_scaffold_8-snap.3290-T1
Valid prediction for GeneMark_model.37074_t
Valid prediction for pasa_asmbl_53501.p1
Valid prediction for snap_scaffold_8-snap.3293-T1
Valid prediction for Augustus_model.g14580.t1
Valid prediction for snap_scaffold_8-snap.3283-T1
Valid prediction for Augustus_model.g14593.t1
Valid prediction for snap_scaffold_8-snap.3296-T1
Valid prediction for GeneMark_model.37068_t
Valid prediction for GlimmerHMM_glimmerT_21761-T1
Valid prediction for GlimmerHMM_glimmerT_21769-T1
Valid prediction for snap_scaffold_8-snap.3268-T1
Valid prediction for GeneMark_model.37060_t
Valid prediction for snap_scaffold_8-snap.3300-T1
Valid prediction for GeneMark_model.37070_t
Valid prediction for snap_scaffold_8-snap.3279-T1
Valid prediction for GlimmerHMM_glimmerT_21760-T1
Valid prediction for GeneMark_model.37063_t
Valid prediction for GlimmerHMM_glimmerT_21763-T1
Valid prediction for Augustus_model.g14589.t1
Valid prediction for snap_scaffold_8-snap.3267-T1
Valid prediction for GeneMark_model.37077_t
Valid prediction for GlimmerHMM_glimmerT_21762-T1
Valid prediction for snap_scaffold_8-snap.3280-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_21777-T1
Valid prediction for GlimmerHMM_glimmerT_21767-T1
Valid prediction for GeneMark_model.37048_t
Valid prediction for snap_scaffold_8-snap.3265-T1
Valid prediction for GlimmerHMM_glimmerT_21774-T1
Valid prediction for snap_scaffold_8-snap.3292-T1
Valid prediction for snap_scaffold_8-snap.3288-T1
Valid prediction for GeneMark_model.37045_t
Valid prediction for snap_scaffold_8-snap.3289-T1
Valid prediction for GlimmerHMM_glimmerT_21754-T1
Valid prediction for snap_scaffold_8-snap.3276-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 159816, rend_intergenic: 158903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162404, rend_intergenic: 160017  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174014, rend_intergenic: 169251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193894, rend_intergenic: 188474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215635, rend_intergenic: 207849  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 220022
-exon list size: 493


building trellis

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98.8    
99.0    
99.2    
99.4    
99.6    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 159816, rend_intergenic: 158903  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162404, rend_intergenic: 160017  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174014, rend_intergenic: 169251  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193894, rend_intergenic: 188474  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 215635, rend_intergenic: 207849  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support