-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_21/scaffold_21_6162710-6340253

-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_49025-T1
Valid prediction for GeneMark_model.84977_t
Valid prediction for GeneMark_model.85012_t
Valid prediction for GlimmerHMM_glimmerT_49030-T1
Valid prediction for snap_scaffold_21-snap.1259-T1
Valid prediction for GeneMark_model.85000_t
Valid prediction for GeneMark_model.85004_t
Valid prediction for snap_scaffold_21-snap.1256-T1
Valid prediction for GlimmerHMM_glimmerT_49019-T1
Valid prediction for snap_scaffold_21-snap.1261-T1
Valid prediction for snap_scaffold_21-snap.1287-T1
Valid prediction for GeneMark_model.84974_t
Valid prediction for Augustus_model.g32855.t1
Valid prediction for GeneMark_model.84984_t
Valid prediction for Augustus_model.g32860.t1
Valid prediction for Augustus_model.g32862.t1
Valid prediction for GeneMark_model.85019_t
Valid prediction for GeneMark_model.85005_t
Valid prediction for HiQ_model.g32849.t1
Valid prediction for snap_scaffold_21-snap.1254-T1
Valid prediction for snap_scaffold_21-snap.1282-T1
Valid prediction for snap_scaffold_21-snap.1289-T1
Valid prediction for GeneMark_model.85021_t
Valid prediction for snap_scaffold_21-snap.1258-T1
Valid prediction for Augustus_model.g32847.t1
Valid prediction for GlimmerHMM_glimmerT_49020-T1
Valid prediction for snap_scaffold_21-snap.1260-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_21-snap.1279-T1
Valid prediction for Augustus_model.g32856.t1
Valid prediction for GeneMark_model.85002_t
Valid prediction for Augustus_model.g32863.t1
Valid prediction for GlimmerHMM_glimmerT_49023-T1
Valid prediction for snap_scaffold_21-snap.1265-T1
Valid prediction for GlimmerHMM_glimmerT_49029-T1
Valid prediction for GlimmerHMM_glimmerT_49026-T1
Valid prediction for Augustus_model.g32848.t1
Valid prediction for GeneMark_model.85007_t
Valid prediction for Augustus_model.g32845.t1
Valid prediction for snap_scaffold_21-snap.1268-T1
Valid prediction for GlimmerHMM_glimmerT_49021-T1
Valid prediction for GeneMark_model.85023_t
Valid prediction for GlimmerHMM_glimmerT_49012-T1
Valid prediction for snap_scaffold_21-snap.1272-T1
Valid prediction for GeneMark_model.84982_t
Valid prediction for snap_scaffold_21-snap.1290-T1
Valid prediction for snap_scaffold_21-snap.1285-T1
Valid prediction for GeneMark_model.85013_t
Valid prediction for snap_scaffold_21-snap.1264-T1
Valid prediction for Augustus_model.g32865.t1
Valid prediction for snap_scaffold_21-snap.1280-T1
Valid prediction for snap_scaffold_21-snap.1281-T1
Valid prediction for GeneMark_model.84997_t
Valid prediction for Augustus_model.g32857.t1
Valid prediction for GlimmerHMM_glimmerT_49014-T1
Valid prediction for snap_scaffold_21-snap.1269-T1
Valid prediction for GlimmerHMM_glimmerT_49010-T1
Valid prediction for GeneMark_model.84992_t
Valid prediction for GeneMark_model.84980_t
Valid prediction for GeneMark_model.84994_t
Valid prediction for snap_scaffold_21-snap.1253-T1
Valid prediction for GeneMark_model.85009_t
Valid prediction for snap_scaffold_21-snap.1274-T1
Valid prediction for GeneMark_model.84988_t
Valid prediction for GeneMark_model.85016_t
Valid prediction for Augustus_model.g32853.t1
Valid prediction for Augustus_model.g32858.t1
Valid prediction for snap_scaffold_21-snap.1277-T1
Valid prediction for Augustus_model.g32854.t1
Valid prediction for GeneMark_model.85017_t
Valid prediction for snap_scaffold_21-snap.1266-T1
Valid prediction for Augustus_model.g32852.t1
Valid prediction for GeneMark_model.84990_t
Valid prediction for GeneMark_model.84986_t
Valid prediction for snap_scaffold_21-snap.1291-T1
Valid prediction for pasa_asmbl_28640.p1
Valid prediction for GlimmerHMM_glimmerT_49035-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 snap_scaffold_21-snap.1271-T1
Valid prediction for Augustus_model.g32851.t1
Valid prediction for GlimmerHMM_glimmerT_49022-T1
Valid prediction for CodingQuarry_transcript_32517-T1
Valid prediction for snap_scaffold_21-snap.1278-T1
Couldn't classify 140676, 141278
Sorry, prediction pasa_asmbl_27742.p2 fails validation.
(GCC)	 TG	140676-141278	AG	AAA
Valid prediction for GlimmerHMM_glimmerT_49011-T1
Valid prediction for GlimmerHMM_glimmerT_49017-T1
Valid prediction for GeneMark_model.85003_t
Valid prediction for GeneMark_model.84989_t
Valid prediction for GeneMark_model.84985_t
Valid prediction for snap_scaffold_21-snap.1286-T1
Valid prediction for GlimmerHMM_glimmerT_49016-T1
Valid prediction for GlimmerHMM_glimmerT_49036-T1
Valid prediction for GlimmerHMM_glimmerT_49018-T1
Valid prediction for snap_scaffold_21-snap.1284-T1
Valid prediction for HiQ_model.g32859.t1
Valid prediction for GlimmerHMM_glimmerT_49015-T1
Valid prediction for GeneMark_model.85011_t
Valid prediction for GlimmerHMM_glimmerT_49028-T1
Valid prediction for snap_scaffold_21-snap.1267-T1
Valid prediction for GlimmerHMM_glimmerT_49024-T1
Valid prediction for GeneMark_model.84999_t
Valid prediction for snap_scaffold_21-snap.1263-T1
Valid prediction for Augustus_model.g32861.t1
Valid prediction for GeneMark_model.84981_t
Valid prediction for GeneMark_model.85010_t
Valid prediction for snap_scaffold_21-snap.1273-T1
Valid prediction for GeneMark_model.84991_t
Valid prediction for pasa_asmbl_27745.p1
Valid prediction for GeneMark_model.84987_t
Valid prediction for GeneMark_model.84976_t
Valid prediction for GeneMark_model.84978_t
Valid prediction for snap_scaffold_21-snap.1283-T1
Valid prediction for snap_scaffold_21-snap.1292-T1
Valid prediction for GlimmerHMM_glimmerT_49033-T1
Valid prediction for GeneMark_model.84998_t
Valid prediction for GlimmerHMM_glimmerT_49034-T1
Valid prediction for snap_scaffold_21-snap.1257-T1
Valid prediction for snap_scaffold_21-snap.1270-T1
Valid prediction for snap_scaffold_21-snap.1255-T1
Valid prediction for GeneMark_model.84996_t
Valid prediction for Augustus_model.g32864.t1
Valid prediction for GeneMark_model.85015_t
Valid prediction for snap_scaffold_21-snap.1262-T1
Valid prediction for GlimmerHMM_glimmerT_49032-T1
Valid prediction for snap_scaffold_21-snap.1275-T1
Valid prediction for Augustus_model.g32846.t1
Valid prediction for GeneMark_model.85006_t
Valid prediction for GeneMark_model.84983_t
Valid prediction for GeneMark_model.84995_t
Valid prediction for GeneMark_model.84993_t
Valid prediction for GeneMark_model.84979_t
Valid prediction for GeneMark_model.85022_t
Valid prediction for snap_scaffold_21-snap.1288-T1
Valid prediction for GeneMark_model.85008_t
Valid prediction for GeneMark_model.84975_t
Valid prediction for GeneMark_model.84973_t
Valid prediction for GeneMark_model.85014_t
Valid prediction for GeneMark_model.85020_t
Valid prediction for snap_scaffold_21-snap.1276-T1
Valid prediction for GeneMark_model.85018_t
Valid prediction for GeneMark_model.85001_t
Valid prediction for GlimmerHMM_glimmerT_49031-T1
Valid prediction for GlimmerHMM_glimmerT_49027-T1
Valid prediction for GlimmerHMM_glimmerT_49013-T1
Valid prediction for Augustus_model.g32850.t1
Valid prediction for CodingQuarry_transcript_32516-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6159, rend_intergenic: 3431  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11622, rend_intergenic: 8068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14451, rend_intergenic: 12034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62830, rend_intergenic: 60758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65040, rend_intergenic: 63291  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76555, rend_intergenic: 72369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106090, rend_intergenic: 85759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116405, rend_intergenic: 109778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140016, rend_intergenic: 135936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142020, rend_intergenic: 140592  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143072, rend_intergenic: 142332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147514, rend_intergenic: 143747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154644, rend_intergenic: 152329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156343, rend_intergenic: 155139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176463, rend_intergenic: 162500  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 177544
-exon list size: 703


building trellis

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-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 6159, rend_intergenic: 3431  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 11622, rend_intergenic: 8068  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14451, rend_intergenic: 12034  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62830, rend_intergenic: 60758  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65040, rend_intergenic: 63291  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76555, rend_intergenic: 72369  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106090, rend_intergenic: 85759  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116405, rend_intergenic: 109778  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140016, rend_intergenic: 135936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142020, rend_intergenic: 140592  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143072, rend_intergenic: 142332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 147514, rend_intergenic: 143747  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154644, rend_intergenic: 152329  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156343, rend_intergenic: 155139  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 176463, rend_intergenic: 162500  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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