-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_1-173953

-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_7-snap.40-T1
Valid prediction for GlimmerHMM_glimmerT_17076-T1
Valid prediction for GeneMark_model.28696_t
Valid prediction for GeneMark_model.28695_t
Valid prediction for GeneMark_model.28725_t
Valid prediction for GeneMark_model.28712_t
Valid prediction for HiQ_model.g11466.t1
Valid prediction for snap_scaffold_7-snap.39-T1
Valid prediction for snap_scaffold_7-snap.41-T1
Valid prediction for snap_scaffold_7-snap.37-T1
Valid prediction for GlimmerHMM_glimmerT_17090-T1
Valid prediction for snap_scaffold_7-snap.20-T1
Valid prediction for snap_scaffold_7-snap.25-T1
Valid prediction for GeneMark_model.28724_t
Valid prediction for GeneMark_model.28698_t
Valid prediction for GlimmerHMM_glimmerT_17086-T1
Valid prediction for GlimmerHMM_glimmerT_17078-T1
Valid prediction for Augustus_model.g11479.t1
Valid prediction for GeneMark_model.28703_t
Valid prediction for snap_scaffold_7-snap.13-T1
Valid prediction for GlimmerHMM_glimmerT_17093-T1
Valid prediction for GeneMark_model.28700_t
Valid prediction for GeneMark_model.28693_t
Valid prediction for GeneMark_model.28723_t
Valid prediction for snap_scaffold_7-snap.27-T1
Valid prediction for GlimmerHMM_glimmerT_17092-T1
Valid prediction for CodingQuarry_transcript_57255-T1
Valid prediction for snap_scaffold_7-snap.29-T1
Valid prediction for GeneMark_model.28715_t
Valid prediction for GeneMark_model.28706_t
Valid prediction for GeneMark_model.28699_t
Valid prediction for snap_scaffold_7-snap.9-T1
Valid prediction for GeneMark_model.28687_t
Valid prediction for snap_scaffold_7-snap.19-T1
Valid prediction for snap_scaffold_7-snap.7-T1
Valid prediction for Augustus_model.g11468.t1
Valid prediction for GeneMark_model.28718_t
Valid prediction for GeneMark_model.28721_t
Valid prediction for snap_scaffold_7-snap.35-T1
Valid prediction for GeneMark_model.28685_t
Valid prediction for snap_scaffold_7-snap.5-T1
Valid prediction for snap_scaffold_7-snap.22-T1
Valid prediction for snap_scaffold_7-snap.14-T1
Valid prediction for snap_scaffold_7-snap.32-T1
Valid prediction for snap_scaffold_7-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_17083-T1
Valid prediction for pasa_asmbl_50415.p1
Valid prediction for snap_scaffold_7-snap.17-T1
Valid prediction for GeneMark_model.28709_t
Valid prediction for GeneMark_model.28708_t
Valid prediction for GeneMark_model.28711_t
Valid prediction for snap_scaffold_7-snap.1-T1
Valid prediction for GeneMark_model.28707_t
Valid prediction for snap_scaffold_7-snap.34-T1
Valid prediction for snap_scaffold_7-snap.12-T1
Valid prediction for GeneMark_model.28705_t
Valid prediction for GeneMark_model.28691_t
Valid prediction for Augustus_model.g11462.t1
Valid prediction for snap_scaffold_7-snap.21-T1
Valid prediction for snap_scaffold_7-snap.43-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.g11473.t1
Valid prediction for GlimmerHMM_glimmerT_17079-T1
Valid prediction for snap_scaffold_7-snap.26-T1
Valid prediction for snap_scaffold_7-snap.24-T1
Valid prediction for GeneMark_model.28697_t
Valid prediction for GlimmerHMM_glimmerT_17080-T1
Valid prediction for snap_scaffold_7-snap.33-T1
Valid prediction for Augustus_model.g11469.t1
Valid prediction for GeneMark_model.28684_t
Valid prediction for snap_scaffold_7-snap.10-T1
Valid prediction for snap_scaffold_7-snap.38-T1
Valid prediction for Augustus_model.g11464.t1
Valid prediction for GeneMark_model.28694_t
Valid prediction for GeneMark_model.28704_t
Valid prediction for GeneMark_model.28717_t
Valid prediction for GlimmerHMM_glimmerT_17077-T1
Couldn't classify 20209, 20523
Sorry, prediction pasa_asmbl_49490.p1 fails validation.
(CTC)	 CT	20209-20523	GA	ACG
Valid prediction for snap_scaffold_7-snap.31-T1
Couldn't classify 27950, 28009
Couldn't classify 32808, 32919
Sorry, prediction pasa_asmbl_49488.p1 fails validation.
(TCT)	 TC	27950-28009	GT	AGG
(GTT)	 AG	28208-28264	GT	AGG
(GAG)	 AG	29758-29856	GT	AGG
(GTG)	 AG	30973-31120	GT	TGG
(CAG)	 AG	31920-31998	GT	AGG
(GTG)	 AG	32808-32919	GT	AGG
-recovered pasa_asmbl_49488.p1, internal, 28208, 28264
-recovered pasa_asmbl_49488.p1, internal, 29758, 29856
-recovered pasa_asmbl_49488.p1, internal, 30973, 31120
-recovered pasa_asmbl_49488.p1, internal, 31920, 31998
-recovered pasa_asmbl_49488.p1, internal, 32808, 32919
Valid prediction for snap_scaffold_7-snap.30-T1
Valid prediction for GlimmerHMM_glimmerT_17082-T1
Valid prediction for Augustus_model.g11470.t1
Valid prediction for CodingQuarry_transcript_57257-T1
Valid prediction for snap_scaffold_7-snap.15-T1
Valid prediction for GeneMark_model.28713_t
Valid prediction for GeneMark_model.28692_t
Valid prediction for GeneMark_model.28701_t
Valid prediction for GlimmerHMM_glimmerT_17084-T1
Couldn't classify 94537, 94623
Couldn't classify 99988, 100107
Sorry, prediction pasa_asmbl_49474.p1 fails validation.
(GAG)	 AG	94537-94623	GT	AGG
(TAC)	 AG	94943-95022	GT	AGG
(TGC)	 AG	95152-95235	GT	GGG
(GGT)	 AG	95780-95897	GT	AGG
(GTG)	 AG	96069-96176	GT	AGG
(GTG)	 AG	98616-98741	GT	TGG
(GAC)	 AG	99988-100107	GT	GGG
-recovered pasa_asmbl_49474.p1, internal, 94537, 94623
-recovered pasa_asmbl_49474.p1, internal, 94943, 95022
-recovered pasa_asmbl_49474.p1, internal, 95152, 95235
-recovered pasa_asmbl_49474.p1, internal, 95780, 95897
-recovered pasa_asmbl_49474.p1, internal, 96069, 96176
-recovered pasa_asmbl_49474.p1, internal, 98616, 98741
-recovered pasa_asmbl_49474.p1, internal, 99988, 100107
Valid prediction for Augustus_model.g11463.t1
Valid prediction for GeneMark_model.28722_t
Valid prediction for GlimmerHMM_glimmerT_17087-T1
Valid prediction for snap_scaffold_7-snap.11-T1
Valid prediction for snap_scaffold_7-snap.18-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.28690_t
Valid prediction for snap_scaffold_7-snap.6-T1
Valid prediction for Augustus_model.g11474.t1
Valid prediction for snap_scaffold_7-snap.36-T1
Valid prediction for GeneMark_model.28710_t
Valid prediction for GeneMark_model.28688_t
Valid prediction for GlimmerHMM_glimmerT_17081-T1
Valid prediction for Augustus_model.g11476.t1
Valid prediction for GeneMark_model.28686_t
Valid prediction for Augustus_model.g11467.t1
Valid prediction for snap_scaffold_7-snap.28-T1
Valid prediction for GeneMark_model.28720_t
Valid prediction for GlimmerHMM_glimmerT_17075-T1
Valid prediction for GeneMark_model.28714_t
Valid prediction for Augustus_model.g11478.t1
Valid prediction for GlimmerHMM_glimmerT_17089-T1
Valid prediction for Augustus_model.g11475.t1
Valid prediction for Augustus_model.g11465.t1
Valid prediction for pasa_asmbl_49480.p1
Valid prediction for GlimmerHMM_glimmerT_17085-T1
Couldn't classify 44164, 45449
Sorry, prediction GlimmerHMM_glimmerT_17088-T1 fails validation.
(ATN)	 GA	44164-45449	GT	CAG
(ACT)	 AG	46063-46273	AT	AGA
-recovered GlimmerHMM_glimmerT_17088-T1, terminal, 46063, 46273
Valid prediction for GlimmerHMM_glimmerT_17074-T1
Valid prediction for snap_scaffold_7-snap.42-T1
Valid prediction for HiQ_model.g11471.t1
Valid prediction for snap_scaffold_7-snap.4-T1
Valid prediction for Augustus_model.g11477.t1
Valid prediction for GeneMark_model.28689_t
Valid prediction for GeneMark_model.28702_t
Valid prediction for snap_scaffold_7-snap.16-T1
Valid prediction for GeneMark_model.28719_t
Valid prediction for Augustus_model.g11472.t1
Valid prediction for Augustus_model.g11461.t1
Valid prediction for snap_scaffold_7-snap.2-T1
Valid prediction for GlimmerHMM_glimmerT_17073-T1
Valid prediction for GeneMark_model.28716_t
Valid prediction for GlimmerHMM_glimmerT_17091-T1
Valid prediction for snap_scaffold_7-snap.23-T1
Valid prediction for snap_scaffold_7-snap.8-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10697, rend_intergenic: 8911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10894, rend_intergenic: 10805  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21618, rend_intergenic: 19827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66266, rend_intergenic: 58674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72868, rend_intergenic: 67981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75467, rend_intergenic: 73833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90824, rend_intergenic: 77791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108650, rend_intergenic: 94763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114685, rend_intergenic: 109097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118205, rend_intergenic: 117020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126811, rend_intergenic: 125150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138516, rend_intergenic: 128501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144479, rend_intergenic: 139699  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146556, rend_intergenic: 144625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150824, rend_intergenic: 146835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166844, rend_intergenic: 165367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 173953
-exon list size: 661


building trellis

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99.7    
99.8    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 10697, rend_intergenic: 8911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10894, rend_intergenic: 10805  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 21618, rend_intergenic: 19827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66266, rend_intergenic: 58674  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72868, rend_intergenic: 67981  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75467, rend_intergenic: 73833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90824, rend_intergenic: 77791  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108650, rend_intergenic: 94763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114685, rend_intergenic: 109097  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 118205, rend_intergenic: 117020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126811, rend_intergenic: 125150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138516, rend_intergenic: 128501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 144479, rend_intergenic: 139699  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146556, rend_intergenic: 144625  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150824, rend_intergenic: 146835  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166844, rend_intergenic: 165367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support