-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_12/scaffold_12_7677624-7856374

-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_12-snap.1468-T1
Valid prediction for GeneMark_model.52216_t
Valid prediction for GlimmerHMM_glimmerT_30220-T1
Valid prediction for snap_scaffold_12-snap.1441-T1
Valid prediction for GeneMark_model.52166_t
Valid prediction for CodingQuarry_transcript_10280-T1
Valid prediction for GeneMark_model.52212_t
Valid prediction for GlimmerHMM_glimmerT_30215-T1
Valid prediction for GeneMark_model.52219_t
Valid prediction for snap_scaffold_12-snap.1457-T1
Valid prediction for snap_scaffold_12-snap.1456-T1
Valid prediction for GeneMark_model.52221_t
Valid prediction for snap_scaffold_12-snap.1455-T1
Valid prediction for snap_scaffold_12-snap.1460-T1
Valid prediction for snap_scaffold_12-snap.1462-T1
Valid prediction for GlimmerHMM_glimmerT_30222-T1
Valid prediction for Augustus_model.g20135.t1
Valid prediction for GeneMark_model.52173_t
Valid prediction for snap_scaffold_12-snap.1448-T1
Valid prediction for snap_scaffold_12-snap.1470-T1
Valid prediction for GeneMark_model.52204_t
Valid prediction for GeneMark_model.52175_t
Valid prediction for Augustus_model.g20141.t1
Valid prediction for GlimmerHMM_glimmerT_30223-T1
Valid prediction for snap_scaffold_12-snap.1465-T1
Valid prediction for GeneMark_model.52188_t
Valid prediction for GlimmerHMM_glimmerT_30221-T1
Valid prediction for Augustus_model.g20137.t1
Valid prediction for Augustus_model.g20127.t1
Valid prediction for GeneMark_model.52193_t
Valid prediction for Augustus_model.g20134.t1
Valid prediction for snap_scaffold_12-snap.1447-T1
Valid prediction for Augustus_model.g20133.t1
Valid prediction for GeneMark_model.52198_t
Valid prediction for GlimmerHMM_glimmerT_30229-T1
Valid prediction for GlimmerHMM_glimmerT_30219-T1
Valid prediction for GeneMark_model.52168_t
Valid prediction for snap_scaffold_12-snap.1459-T1
Valid prediction for Augustus_model.g20128.t1
Valid prediction for GeneMark_model.52186_t
Valid prediction for Augustus_model.g20129.t1
Valid prediction for snap_scaffold_12-snap.1445-T1
Valid prediction for GeneMark_model.52206_t
Valid prediction for Augustus_model.g20124.t1
Valid prediction for snap_scaffold_12-snap.1436-T1
Valid prediction for snap_scaffold_12-snap.1438-T1
Valid prediction for GeneMark_model.52177_t
Valid prediction for GeneMark_model.52202_t
Valid prediction for Augustus_model.g20131.t1
Valid prediction for GeneMark_model.52183_t
Valid prediction for GlimmerHMM_glimmerT_30226-T1
Valid prediction for GlimmerHMM_glimmerT_30230-T1
Valid prediction for snap_scaffold_12-snap.1473-T1
Valid prediction for GlimmerHMM_glimmerT_30228-T1
Valid prediction for GeneMark_model.52196_t
Valid prediction for pasa_asmbl_8760.p1
Valid prediction for GeneMark_model.52218_t
Valid prediction for GeneMark_model.52207_t
Valid prediction for GlimmerHMM_glimmerT_30224-T1
Valid prediction for Augustus_model.g20130.t1
Valid prediction for Augustus_model.g20136.t1
Valid prediction for snap_scaffold_12-snap.1471-T1
Valid prediction for HiQ_model.g20132.t1
Valid prediction for GeneMark_model.52200_t
Valid prediction for GlimmerHMM_glimmerT_30227-T1
Valid prediction for GlimmerHMM_glimmerT_30212-T1
Valid prediction for GeneMark_model.52210_t
Valid prediction for Augustus_model.g20126.t1
Valid prediction for GlimmerHMM_glimmerT_30216-T1
Valid prediction for snap_scaffold_12-snap.1451-T1
Valid prediction for GeneMark_model.52181_t
Valid prediction for snap_scaffold_12-snap.1443-T1
Valid prediction for GlimmerHMM_glimmerT_30214-T1
Valid prediction for GeneMark_model.52191_t
Valid prediction for GeneMark_model.52179_t
Valid prediction for GlimmerHMM_glimmerT_30217-T1
Valid prediction for CodingQuarry_transcript_10279-T1
Valid prediction for GeneMark_model.52214_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 snap_scaffold_12-snap.1467-T1
Valid prediction for GeneMark_model.52192_t
Valid prediction for GeneMark_model.52169_t
Valid prediction for snap_scaffold_12-snap.1472-T1
Valid prediction for Augustus_model.g20139.t1
Valid prediction for GeneMark_model.52211_t
Valid prediction for GeneMark_model.52184_t
Valid prediction for Augustus_model.g20138.t1
Valid prediction for GlimmerHMM_glimmerT_30218-T1
Valid prediction for GlimmerHMM_glimmerT_30232-T1
Valid prediction for snap_scaffold_12-snap.1449-T1
Valid prediction for snap_scaffold_12-snap.1463-T1
Valid prediction for snap_scaffold_12-snap.1466-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GeneMark_model.52217_t
Valid prediction for pasa_asmbl_8326.p1
Valid prediction for GlimmerHMM_glimmerT_30225-T1
Valid prediction for CodingQuarry_transcript_10281-T1
Valid prediction for snap_scaffold_12-snap.1469-T1
Valid prediction for snap_scaffold_12-snap.1475-T1
Valid prediction for GeneMark_model.52194_t
Valid prediction for Augustus_model.g20125.t1
Valid prediction for snap_scaffold_12-snap.1461-T1
Valid prediction for snap_scaffold_12-snap.1440-T1
Valid prediction for snap_scaffold_12-snap.1439-T1
Valid prediction for GeneMark_model.52176_t
Valid prediction for GeneMark_model.52187_t
Valid prediction for GlimmerHMM_glimmerT_30213-T1
Valid prediction for GeneMark_model.52189_t
Valid prediction for snap_scaffold_12-snap.1458-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GeneMark_model.52171_t
Valid prediction for GlimmerHMM_glimmerT_30233-T1
Valid prediction for snap_scaffold_12-snap.1442-T1
Valid prediction for snap_scaffold_12-snap.1474-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.52182_t
Valid prediction for GeneMark_model.52208_t
Valid prediction for GeneMark_model.52201_t
Valid prediction for GeneMark_model.52213_t
Valid prediction for snap_scaffold_12-snap.1464-T1
Valid prediction for snap_scaffold_12-snap.1452-T1
Valid prediction for GeneMark_model.52209_t
Valid prediction for snap_scaffold_12-snap.1437-T1
Valid prediction for GeneMark_model.52203_t
Valid prediction for snap_scaffold_12-snap.1446-T1
Valid prediction for HiQ_model.g20140.t1
Valid prediction for GeneMark_model.52215_t
Valid prediction for GeneMark_model.52195_t
Valid prediction for GeneMark_model.52172_t
Valid prediction for GeneMark_model.52220_t
Valid prediction for GeneMark_model.52190_t
Valid prediction for GeneMark_model.52174_t
Valid prediction for GeneMark_model.52180_t
Valid prediction for GlimmerHMM_glimmerT_30231-T1
Valid prediction for snap_scaffold_12-snap.1454-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_12-snap.1453-T1
Valid prediction for snap_scaffold_12-snap.1450-T1
Valid prediction for GeneMark_model.52170_t
Valid prediction for GeneMark_model.52205_t
Valid prediction for GeneMark_model.52199_t
Valid prediction for GeneMark_model.52178_t
Valid prediction for snap_scaffold_12-snap.1444-T1
Valid prediction for GeneMark_model.52185_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8265, rend_intergenic: 3914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17043, rend_intergenic: 11745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26840, rend_intergenic: 21043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47342, rend_intergenic: 47271  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51448, rend_intergenic: 47993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57808, rend_intergenic: 55240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69994, rend_intergenic: 63804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78283, rend_intergenic: 70274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85780, rend_intergenic: 78714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89178, rend_intergenic: 86974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106448, rend_intergenic: 102354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114260, rend_intergenic: 111980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124449, rend_intergenic: 115267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126517, rend_intergenic: 125408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129678, rend_intergenic: 127170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136106, rend_intergenic: 134414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142029, rend_intergenic: 136122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156662, rend_intergenic: 142154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174881, rend_intergenic: 164824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 178751
-exon list size: 655


building trellis

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99.8    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 8265, rend_intergenic: 3914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 17043, rend_intergenic: 11745  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26840, rend_intergenic: 21043  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47342, rend_intergenic: 47271  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51448, rend_intergenic: 47993  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57808, rend_intergenic: 55240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69994, rend_intergenic: 63804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 78283, rend_intergenic: 70274  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85780, rend_intergenic: 78714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89178, rend_intergenic: 86974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106448, rend_intergenic: 102354  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 114260, rend_intergenic: 111980  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124449, rend_intergenic: 115267  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 126517, rend_intergenic: 125408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129678, rend_intergenic: 127170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136106, rend_intergenic: 134414  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142029, rend_intergenic: 136122  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156662, rend_intergenic: 142154  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174881, rend_intergenic: 164824  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support