-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_11/scaffold_11_2523037-2686940

-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.47041_t
Valid prediction for snap_scaffold_11-snap.671-T1
Valid prediction for snap_scaffold_11-snap.675-T1
Valid prediction for GeneMark_model.47035_t
Valid prediction for snap_scaffold_11-snap.658-T1
Valid prediction for Augustus_model.g18183.t1
Valid prediction for GlimmerHMM_glimmerT_27242-T1
Valid prediction for GeneMark_model.46998_t
Valid prediction for GeneMark_model.47008_t
Valid prediction for snap_scaffold_11-snap.653-T1
Valid prediction for GeneMark_model.46994_t
Valid prediction for GeneMark_model.47003_t
Valid prediction for Augustus_model.g18175.t1
Valid prediction for GeneMark_model.47025_t
Valid prediction for GeneMark_model.47043_t
Valid prediction for GeneMark_model.47013_t
Couldn't classify 91940, 92473
Sorry, prediction pasa_asmbl_5329.p1 fails validation.
(CAC)	 CC	91940-92473	CC	CCC
Valid prediction for GlimmerHMM_glimmerT_27230-T1
Valid prediction for Augustus_model.g18184.t1
Valid prediction for GlimmerHMM_glimmerT_27232-T1
Valid prediction for Augustus_model.g18180.t1
Valid prediction for GeneMark_model.47016_t
Valid prediction for snap_scaffold_11-snap.640-T1
Valid prediction for snap_scaffold_11-snap.669-T1
Valid prediction for GeneMark_model.47023_t
Valid prediction for Augustus_model.g18185.t1
Valid prediction for snap_scaffold_11-snap.661-T1
Valid prediction for GeneMark_model.47038_t
Valid prediction for GlimmerHMM_glimmerT_27244-T1
Valid prediction for GlimmerHMM_glimmerT_27235-T1
Valid prediction for GeneMark_model.47006_t
Valid prediction for snap_scaffold_11-snap.648-T1
Valid prediction for GeneMark_model.47012_t
Valid prediction for GeneMark_model.47014_t
Valid prediction for snap_scaffold_11-snap.638-T1
Valid prediction for snap_scaffold_11-snap.651-T1
Valid prediction for snap_scaffold_11-snap.670-T1
Valid prediction for GeneMark_model.46993_t
Valid prediction for GlimmerHMM_glimmerT_27226-T1
Valid prediction for snap_scaffold_11-snap.672-T1
Valid prediction for GlimmerHMM_glimmerT_27241-T1
Valid prediction for GeneMark_model.47033_t
Valid prediction for Augustus_model.g18179.t1
Valid prediction for snap_scaffold_11-snap.657-T1
Valid prediction for Augustus_model.g18178.t1
Valid prediction for GlimmerHMM_glimmerT_27228-T1
Valid prediction for GlimmerHMM_glimmerT_27245-T1
Valid prediction for GeneMark_model.47030_t
Valid prediction for snap_scaffold_11-snap.664-T1
Valid prediction for snap_scaffold_11-snap.667-T1
Valid prediction for GeneMark_model.47000_t
Valid prediction for GeneMark_model.47039_t
Valid prediction for GeneMark_model.47010_t
Valid prediction for GeneMark_model.47032_t
Valid prediction for Augustus_model.g18182.t1
Couldn't classify 95872, 95991
Sorry, prediction pasa_asmbl_5330.p1 fails validation.
(ATA)	 CC	95872-95991	GT	AGG
(GGC)	 AG	96333-96483	GT	GTG
(TTG)	 AG	96937-97118	CA	GAC
-recovered pasa_asmbl_5330.p1, terminal, 96937, 97118
-recovered pasa_asmbl_5330.p1, internal, 96333, 96483
Valid prediction for GeneMark_model.47020_t
Valid prediction for snap_scaffold_11-snap.652-T1
Valid prediction for GeneMark_model.46996_t
Valid prediction for snap_scaffold_11-snap.633-T1
Valid prediction for snap_scaffold_11-snap.644-T1
Valid prediction for GeneMark_model.47019_t
Valid prediction for Augustus_model.g18177.t1
Valid prediction for snap_scaffold_11-snap.635-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 GlimmerHMM_glimmerT_27231-T1
Valid prediction for snap_scaffold_11-snap.655-T1
Valid prediction for GeneMark_model.47021_t
Valid prediction for snap_scaffold_11-snap.636-T1
Valid prediction for snap_scaffold_11-snap.668-T1
Valid prediction for snap_scaffold_11-snap.663-T1
Valid prediction for snap_scaffold_11-snap.641-T1
Valid prediction for GlimmerHMM_glimmerT_27238-T1
Valid prediction for snap_scaffold_11-snap.634-T1
Valid prediction for GeneMark_model.47026_t
Valid prediction for snap_scaffold_11-snap.643-T1
Valid prediction for Augustus_model.g18186.t1
Valid prediction for GeneMark_model.47044_t
Valid prediction for GeneMark_model.47017_t
Valid prediction for Augustus_model.g18176.t1
Valid prediction for GlimmerHMM_glimmerT_27239-T1
Valid prediction for snap_scaffold_11-snap.637-T1
Valid prediction for GeneMark_model.47002_t
Valid prediction for snap_scaffold_11-snap.642-T1
Valid prediction for snap_scaffold_11-snap.649-T1
Valid prediction for snap_scaffold_11-snap.674-T1
Valid prediction for GeneMark_model.47004_t
Valid prediction for GeneMark_model.47018_t
Valid prediction for GlimmerHMM_glimmerT_27243-T1
Valid prediction for GeneMark_model.46995_t
Valid prediction for GlimmerHMM_glimmerT_27234-T1
Valid prediction for GeneMark_model.47011_t
Valid prediction for GeneMark_model.47040_t
Valid prediction for snap_scaffold_11-snap.660-T1
Valid prediction for GeneMark_model.46997_t
Valid prediction for GlimmerHMM_glimmerT_27227-T1
Valid prediction for GeneMark_model.47027_t
Valid prediction for GeneMark_model.47036_t
Valid prediction for snap_scaffold_11-snap.662-T1
Valid prediction for Augustus_model.g18188.t1
Valid prediction for snap_scaffold_11-snap.666-T1
Valid prediction for GeneMark_model.47031_t
Valid prediction for GlimmerHMM_glimmerT_27240-T1
Valid prediction for GlimmerHMM_glimmerT_27236-T1
Valid prediction for snap_scaffold_11-snap.656-T1
Valid prediction for snap_scaffold_11-snap.676-T1
Valid prediction for GeneMark_model.47042_t
Valid prediction for GlimmerHMM_glimmerT_27237-T1
Valid prediction for snap_scaffold_11-snap.650-T1
Valid prediction for GeneMark_model.47001_t
Valid prediction for GeneMark_model.47009_t
Valid prediction for snap_scaffold_11-snap.645-T1
Valid prediction for snap_scaffold_11-snap.654-T1
Valid prediction for snap_scaffold_11-snap.646-T1
Valid prediction for snap_scaffold_11-snap.673-T1
Valid prediction for GlimmerHMM_glimmerT_27233-T1
Valid prediction for GlimmerHMM_glimmerT_27246-T1
Valid prediction for GeneMark_model.47015_t
Valid prediction for GeneMark_model.47005_t
Valid prediction for GeneMark_model.47037_t
Valid prediction for GeneMark_model.47024_t
Valid prediction for GeneMark_model.47028_t
Valid prediction for GeneMark_model.47029_t
Valid prediction for Augustus_model.g18181.t1
Valid prediction for snap_scaffold_11-snap.647-T1
Valid prediction for Augustus_model.g18187.t1
Valid prediction for GeneMark_model.47034_t
Valid prediction for snap_scaffold_11-snap.665-T1
Valid prediction for GeneMark_model.47007_t
Valid prediction for GlimmerHMM_glimmerT_27229-T1
Valid prediction for GeneMark_model.46999_t
Valid prediction for GlimmerHMM_glimmerT_27225-T1
Valid prediction for snap_scaffold_11-snap.659-T1
Valid prediction for snap_scaffold_11-snap.639-T1
Valid prediction for GeneMark_model.47022_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 12946, rend_intergenic: 9775  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20767, rend_intergenic: 13020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26499, rend_intergenic: 21702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43270, rend_intergenic: 37579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44403, rend_intergenic: 43640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55563, rend_intergenic: 45057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61261, rend_intergenic: 57234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78435, rend_intergenic: 61738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88166, rend_intergenic: 78436  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88420, rend_intergenic: 88212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97118, rend_intergenic: 94834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114801, rend_intergenic: 110480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138032, rend_intergenic: 133368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151810, rend_intergenic: 149680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155501, rend_intergenic: 154012  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 163904
-exon list size: 790


building trellis

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99.4    
99.5    
99.6    
99.7    
99.9    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 12946, rend_intergenic: 9775  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20767, rend_intergenic: 13020  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26499, rend_intergenic: 21702  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 43270, rend_intergenic: 37579  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 44403, rend_intergenic: 43640  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55563, rend_intergenic: 45057  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 61261, rend_intergenic: 57234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78435, rend_intergenic: 61738  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88166, rend_intergenic: 78436  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88420, rend_intergenic: 88212  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97118, rend_intergenic: 94834  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114801, rend_intergenic: 110480  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138032, rend_intergenic: 133368  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151810, rend_intergenic: 149680  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155501, rend_intergenic: 154012  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support