-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_10/scaffold_10_7885908-8035412

-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 GeneMark_model.43640_t
Valid prediction for GlimmerHMM_glimmerT_25541-T1
Valid prediction for GlimmerHMM_glimmerT_25527-T1
Valid prediction for GeneMark_model.43628_t
Valid prediction for GeneMark_model.43653_t
Valid prediction for GlimmerHMM_glimmerT_25540-T1
Valid prediction for Augustus_model.g17149.t1
Valid prediction for snap_scaffold_10-snap.1572-T1
Valid prediction for snap_scaffold_10-snap.1569-T1
Valid prediction for snap_scaffold_10-snap.1575-T1
Valid prediction for snap_scaffold_10-snap.1581-T1
Valid prediction for Augustus_model.g17152.t1
Valid prediction for snap_scaffold_10-snap.1585-T1
Valid prediction for GeneMark_model.43662_t
Valid prediction for GeneMark_model.43641_t
Valid prediction for GeneMark_model.43647_t
Valid prediction for GeneMark_model.43644_t
Valid prediction for snap_scaffold_10-snap.1582-T1
Valid prediction for GeneMark_model.43655_t
Valid prediction for GlimmerHMM_glimmerT_25530-T1
Valid prediction for snap_scaffold_10-snap.1593-T1
Valid prediction for GeneMark_model.43659_t
Valid prediction for snap_scaffold_10-snap.1590-T1
Valid prediction for GlimmerHMM_glimmerT_25537-T1
Valid prediction for snap_scaffold_10-snap.1573-T1
Valid prediction for GlimmerHMM_glimmerT_25539-T1
Valid prediction for GeneMark_model.43629_t
Valid prediction for snap_scaffold_10-snap.1570-T1
Valid prediction for snap_scaffold_10-snap.1592-T1
Valid prediction for GeneMark_model.43635_t
Valid prediction for GlimmerHMM_glimmerT_25542-T1
Valid prediction for GeneMark_model.43638_t
Valid prediction for GlimmerHMM_glimmerT_25524-T1
Valid prediction for Augustus_model.g17150.t1
Valid prediction for GeneMark_model.43632_t
Valid prediction for GlimmerHMM_glimmerT_25532-T1
Valid prediction for Augustus_model.g17146.t1
Couldn't classify 60748, 60915
Couldn't classify 64443, 64682
Sorry, prediction pasa_asmbl_4588.p1 fails validation.
(GGG)	 CA	60748-60915	GT	TTG
(GTT)	 AG	62359-62478	GT	AGG
(GAG)	 AG	64443-64682	CT	AGC
-recovered pasa_asmbl_4588.p1, internal, 62359, 62478
Valid prediction for Augustus_model.g17154.t1
Valid prediction for GeneMark_model.43648_t
Valid prediction for GlimmerHMM_glimmerT_25534-T1
Valid prediction for snap_scaffold_10-snap.1578-T1
Valid prediction for Augustus_model.g17147.t1
Valid prediction for snap_scaffold_10-snap.1567-T1
Valid prediction for GeneMark_model.43664_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: -)Valid prediction for GeneMark_model.43639_t
Valid prediction for GeneMark_model.43657_t
Valid prediction for GeneMark_model.43631_t
Valid prediction for GlimmerHMM_glimmerT_25526-T1
Valid prediction for GeneMark_model.43646_t
Valid prediction for GlimmerHMM_glimmerT_25529-T1
Valid prediction for snap_scaffold_10-snap.1587-T1
Valid prediction for GlimmerHMM_glimmerT_25544-T1
Valid prediction for GeneMark_model.43642_t
Valid prediction for GeneMark_model.43649_t
Valid prediction for GlimmerHMM_glimmerT_25538-T1
Valid prediction for GeneMark_model.43630_t
Valid prediction for snap_scaffold_10-snap.1584-T1
Valid prediction for GlimmerHMM_glimmerT_25528-T1
Valid prediction for GeneMark_model.43636_t
Valid prediction for snap_scaffold_10-snap.1588-T1
Valid prediction for Augustus_model.g17148.t1
Valid prediction for GeneMark_model.43645_t
Valid prediction for GeneMark_model.43665_t
Valid prediction for snap_scaffold_10-snap.1579-T1
Valid prediction for snap_scaffold_10-snap.1571-T1
Valid prediction for GeneMark_model.43663_t
Valid prediction for GeneMark_model.43656_t
Valid prediction for GeneMark_model.43634_t
Valid prediction for GeneMark_model.43654_t
Valid prediction for GeneMark_model.43650_t
Valid prediction for GlimmerHMM_glimmerT_25535-T1
Valid prediction for snap_scaffold_10-snap.1580-T1
Valid prediction for snap_scaffold_10-snap.1589-T1
Valid prediction for GlimmerHMM_glimmerT_25533-T1
Valid prediction for GeneMark_model.43652_t
Valid prediction for GlimmerHMM_glimmerT_25525-T1
Valid prediction for Augustus_model.g17151.t1
Valid prediction for snap_scaffold_10-snap.1586-T1
Valid prediction for Augustus_model.g17145.t1
Valid prediction for GeneMark_model.43633_t
Valid prediction for snap_scaffold_10-snap.1568-T1
Valid prediction for GeneMark_model.43661_t
Valid prediction for snap_scaffold_10-snap.1583-T1
Valid prediction for GeneMark_model.43651_t
Valid prediction for snap_scaffold_10-snap.1591-T1
Valid prediction for GlimmerHMM_glimmerT_25536-T1
Valid prediction for GeneMark_model.43643_t
Valid prediction for snap_scaffold_10-snap.1577-T1
Valid prediction for GeneMark_model.43658_t
Valid prediction for GlimmerHMM_glimmerT_25531-T1
Valid prediction for snap_scaffold_10-snap.1576-T1
Valid prediction for Augustus_model.g17153.t1
Valid prediction for GeneMark_model.43637_t
Valid prediction for snap_scaffold_10-snap.1574-T1
Valid prediction for GeneMark_model.43660_t
Valid prediction for GlimmerHMM_glimmerT_25543-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 76796, rend_intergenic: 76793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16649, rend_intergenic: 16533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30994, rend_intergenic: 29776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33375, rend_intergenic: 31722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53706, rend_intergenic: 49487  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63175, rend_intergenic: 54988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70426, rend_intergenic: 67692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74561, rend_intergenic: 71666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84460, rend_intergenic: 76793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99771, rend_intergenic: 86641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141780, rend_intergenic: 136969  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 149505
-exon list size: 452


building trellis

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99.8    
-found 19 predictions from path traversal
Error with prediction: GlimmerHMM lend_intergenic: 76796, rend_intergenic: 76793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16649, rend_intergenic: 16533  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30994, rend_intergenic: 29776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33375, rend_intergenic: 31722  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53706, rend_intergenic: 49487  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63175, rend_intergenic: 54988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70426, rend_intergenic: 67692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74561, rend_intergenic: 71666  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84460, rend_intergenic: 76793  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99771, rend_intergenic: 86641  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141780, rend_intergenic: 136969  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 3 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 13956
-exon list size: 13


building trellis

6.7    
13.3    
20.0    
26.7    
33.3    
40.0    
46.7    
53.3    
60.0    
66.7    
73.3    
80.0    
86.7    
93.3    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support