-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_25/scaffold_25_2185478-2512760

-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_53733-T1
Valid prediction for snap_scaffold_25-snap.464-T1
Valid prediction for snap_scaffold_25-snap.459-T1
Valid prediction for GlimmerHMM_glimmerT_53724-T1
Valid prediction for snap_scaffold_25-snap.463-T1
Valid prediction for Augustus_model.g35667.t1
Couldn't classify 69916, 70215
Sorry, prediction pasa_asmbl_33392.p1 fails validation.
(ACC)	 TC	69916-70215	AT	GAA
Valid prediction for GlimmerHMM_glimmerT_53732-T1
Valid prediction for snap_scaffold_25-snap.444-T1
Valid prediction for snap_scaffold_25-snap.480-T1
Valid prediction for snap_scaffold_25-snap.458-T1
Valid prediction for GlimmerHMM_glimmerT_53720-T1
Valid prediction for snap_scaffold_25-snap.435-T1
Valid prediction for GlimmerHMM_glimmerT_53726-T1
Valid prediction for GlimmerHMM_glimmerT_53716-T1
Valid prediction for GlimmerHMM_glimmerT_53734-T1
Valid prediction for snap_scaffold_25-snap.484-T1
Valid prediction for snap_scaffold_25-snap.491-T1
Valid prediction for snap_scaffold_25-snap.477-T1
Valid prediction for Augustus_model.g35678.t1
Valid prediction for snap_scaffold_25-snap.448-T1
Valid prediction for GlimmerHMM_glimmerT_53698-T1
Valid prediction for GlimmerHMM_glimmerT_53727-T1
Valid prediction for GlimmerHMM_glimmerT_53719-T1
Valid prediction for snap_scaffold_25-snap.438-T1
Valid prediction for snap_scaffold_25-snap.493-T1
Valid prediction for snap_scaffold_25-snap.465-T1
Valid prediction for snap_scaffold_25-snap.483-T1
Valid prediction for snap_scaffold_25-snap.454-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_25-snap.442-T1
Valid prediction for GlimmerHMM_glimmerT_53706-T1
Valid prediction for Augustus_model.g35681.t1
Valid prediction for snap_scaffold_25-snap.469-T1
Valid prediction for Augustus_model.g35676.t1
Couldn't classify 63455, 63720
Couldn't classify 66424, 66480
Sorry, prediction pasa_asmbl_33391.p1 fails validation.
(TAT)	 GG	63455-63720	GT	GGG
(GGT)	 AG	65490-65574	GT	TGG
(AGG)	 AG	66424-66480	TC	AGT
-recovered pasa_asmbl_33391.p1, internal, 65490, 65574
Valid prediction for snap_scaffold_25-snap.472-T1
Valid prediction for GlimmerHMM_glimmerT_53708-T1
Valid prediction for snap_scaffold_25-snap.466-T1
Valid prediction for snap_scaffold_25-snap.474-T1
Valid prediction for GlimmerHMM_glimmerT_53713-T1
Valid prediction for Augustus_model.g35679.t1
Valid prediction for Augustus_model.g35669.t1
Valid prediction for GlimmerHMM_glimmerT_53699-T1
Valid prediction for snap_scaffold_25-snap.439-T1
Valid prediction for Augustus_model.g35671.t1
Valid prediction for GlimmerHMM_glimmerT_53717-T1
Couldn't classify 56594, 57757
Sorry, prediction pasa_asmbl_33390.p1 fails validation.
(ACC)	 CA	56594-57757	CA	AGC
Valid prediction for Augustus_model.g35668.t1
Valid prediction for snap_scaffold_25-snap.487-T1
Valid prediction for GlimmerHMM_glimmerT_53715-T1
Valid prediction for GlimmerHMM_glimmerT_53704-T1
Valid prediction for GlimmerHMM_glimmerT_53705-T1
Valid prediction for snap_scaffold_25-snap.451-T1
Valid prediction for snap_scaffold_25-snap.496-T1
Valid prediction for Augustus_model.g35677.t1
Valid prediction for Augustus_model.g35666.t1
Valid prediction for Augustus_model.g35680.t1
Valid prediction for snap_scaffold_25-snap.489-T1
Valid prediction for GlimmerHMM_glimmerT_53709-T1
Valid prediction for snap_scaffold_25-snap.476-T1
Valid prediction for GlimmerHMM_glimmerT_53730-T1
Valid prediction for GlimmerHMM_glimmerT_53714-T1
Valid prediction for Augustus_model.g35672.t1
Valid prediction for snap_scaffold_25-snap.462-T1
Valid prediction for snap_scaffold_25-snap.456-T1
Sorry, intron length (3) is less than minimum required (10)

-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 snap_scaffold_25-snap.452-T1
Valid prediction for GlimmerHMM_glimmerT_53710-T1
Valid prediction for GlimmerHMM_glimmerT_53729-T1
Valid prediction for snap_scaffold_25-snap.437-T1
Valid prediction for snap_scaffold_25-snap.445-T1
Valid prediction for snap_scaffold_25-snap.443-T1
Valid prediction for GlimmerHMM_glimmerT_53702-T1
Valid prediction for GlimmerHMM_glimmerT_53718-T1
Valid prediction for GlimmerHMM_glimmerT_53736-T1
Valid prediction for snap_scaffold_25-snap.495-T1
Valid prediction for snap_scaffold_25-snap.494-T1
Valid prediction for GlimmerHMM_glimmerT_53700-T1
Valid prediction for GlimmerHMM_glimmerT_53721-T1
Valid prediction for snap_scaffold_25-snap.486-T1
Valid prediction for GlimmerHMM_glimmerT_53701-T1
Valid prediction for GlimmerHMM_glimmerT_53723-T1
Valid prediction for snap_scaffold_25-snap.481-T1
Valid prediction for snap_scaffold_25-snap.461-T1
Valid prediction for snap_scaffold_25-snap.470-T1
Sorry, intron length (7) is less than minimum required (10)
Sorry, intron length (7) is less than minimum required (10)
Sorry, intron length (7) is less than minimum required (10)
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_53703-T1
Valid prediction for snap_scaffold_25-snap.468-T1
Valid prediction for snap_scaffold_25-snap.473-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g35670.t1
Valid prediction for GlimmerHMM_glimmerT_53697-T1
Valid prediction for GlimmerHMM_glimmerT_53728-T1
Valid prediction for snap_scaffold_25-snap.441-T1
Valid prediction for GlimmerHMM_glimmerT_53725-T1
Valid prediction for GlimmerHMM_glimmerT_53712-T1
Valid prediction for snap_scaffold_25-snap.460-T1
Valid prediction for snap_scaffold_25-snap.453-T1
Valid prediction for snap_scaffold_25-snap.471-T1
Valid prediction for GlimmerHMM_glimmerT_53722-T1
Valid prediction for Augustus_model.g35665.t1
Valid prediction for GlimmerHMM_glimmerT_53737-T1
Valid prediction for snap_scaffold_25-snap.490-T1
Valid prediction for snap_scaffold_25-snap.440-T1
Valid prediction for snap_scaffold_25-snap.450-T1
Valid prediction for snap_scaffold_25-snap.488-T1
Valid prediction for snap_scaffold_25-snap.475-T1
Valid prediction for snap_scaffold_25-snap.492-T1
Valid prediction for Augustus_model.g35673.t1
Valid prediction for snap_scaffold_25-snap.436-T1
Valid prediction for GlimmerHMM_glimmerT_53731-T1
Valid prediction for snap_scaffold_25-snap.479-T1
Valid prediction for snap_scaffold_25-snap.457-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_25-snap.446-T1
Valid prediction for GlimmerHMM_glimmerT_53707-T1
Valid prediction for Augustus_model.g35682.t1
Valid prediction for snap_scaffold_25-snap.478-T1
Valid prediction for snap_scaffold_25-snap.455-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_53735-T1
Valid prediction for GlimmerHMM_glimmerT_53738-T1
Valid prediction for Augustus_model.g35675.t1
Valid prediction for Augustus_model.g35674.t1
Valid prediction for snap_scaffold_25-snap.447-T1
Valid prediction for snap_scaffold_25-snap.449-T1
Valid prediction for snap_scaffold_25-snap.482-T1
Valid prediction for snap_scaffold_25-snap.467-T1
Valid prediction for snap_scaffold_25-snap.485-T1
Valid prediction for GlimmerHMM_glimmerT_53711-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14760, rend_intergenic: 1871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33127, rend_intergenic: 14884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48254, rend_intergenic: 33276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50951, rend_intergenic: 48278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53998, rend_intergenic: 50988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57952, rend_intergenic: 54996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63724, rend_intergenic: 59179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69645, rend_intergenic: 63883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88005, rend_intergenic: 78034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92862, rend_intergenic: 89167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100544, rend_intergenic: 96297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105724, rend_intergenic: 101758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110278, rend_intergenic: 107287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121677, rend_intergenic: 110554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154210, rend_intergenic: 121728  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162146, rend_intergenic: 154237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172113, rend_intergenic: 162158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188691, rend_intergenic: 172288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198398, rend_intergenic: 189340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222670, rend_intergenic: 198577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234239, rend_intergenic: 229458  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 240250, rend_intergenic: 235501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251356, rend_intergenic: 240254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 253920, rend_intergenic: 251374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 261402, rend_intergenic: 254227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 269010, rend_intergenic: 261781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 274012, rend_intergenic: 271069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 280756, rend_intergenic: 278635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 282143, rend_intergenic: 280788  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 286664, rend_intergenic: 282713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 294847, rend_intergenic: 287678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 295267, rend_intergenic: 295237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 298642, rend_intergenic: 295281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 319236, rend_intergenic: 300029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 325526, rend_intergenic: 323078  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 108156, rend_intergenic: 108153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 327283
-exon list size: 529


building trellis

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-found 52 predictions from path traversal
Error with prediction: snap lend_intergenic: 14760, rend_intergenic: 1871  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33127, rend_intergenic: 14884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48254, rend_intergenic: 33276  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50951, rend_intergenic: 48278  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 53998, rend_intergenic: 50988  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57952, rend_intergenic: 54996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 63724, rend_intergenic: 59179  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69645, rend_intergenic: 63883  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88005, rend_intergenic: 78034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 92862, rend_intergenic: 89167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100544, rend_intergenic: 96297  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105724, rend_intergenic: 101758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110278, rend_intergenic: 107287  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121677, rend_intergenic: 110554  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154210, rend_intergenic: 121728  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162146, rend_intergenic: 154237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172113, rend_intergenic: 162158  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 188691, rend_intergenic: 172288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198398, rend_intergenic: 189340  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 222670, rend_intergenic: 198577  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 234239, rend_intergenic: 229458  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 240250, rend_intergenic: 235501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 251356, rend_intergenic: 240254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 253920, rend_intergenic: 251374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 261402, rend_intergenic: 254227  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 269010, rend_intergenic: 261781  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 274012, rend_intergenic: 271069  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 280756, rend_intergenic: 278635  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 282143, rend_intergenic: 280788  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 286664, rend_intergenic: 282713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 294847, rend_intergenic: 287678  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 295267, rend_intergenic: 295237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 298642, rend_intergenic: 295281  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 319236, rend_intergenic: 300029  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 325526, rend_intergenic: 323078  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: GlimmerHMM lend_intergenic: 108156, rend_intergenic: 108153  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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