-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_8/scaffold_8_15655576-15840849 -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: +)Couldn't classify 38044, 38374 Sorry, prediction pasa_asmbl_53414.p1 fails validation. (GAG) CA 38044-38374 GT GGG (GGA) AG 38948-39129 AC GAA -recovered pasa_asmbl_53414.p1, terminal, 38948, 39129 Valid prediction for snap_scaffold_8-snap.2861-T1 Valid prediction for snap_scaffold_8-snap.2865-T1 Valid prediction for snap_scaffold_8-snap.2854-T1 Valid prediction for snap_scaffold_8-snap.2880-T1 Valid prediction for pasa_asmbl_53415.p1 Valid prediction for GlimmerHMM_glimmerT_21001-T1 Valid prediction for GlimmerHMM_glimmerT_21019-T1 Valid prediction for HiQ_model.g13972.t1 Valid prediction for Augustus_model.g13970.t1 Valid prediction for CodingQuarry_transcript_59911-T1 Valid prediction for snap_scaffold_8-snap.2857-T1 Valid prediction for Augustus_model.g13966.t1 Valid prediction for CodingQuarry_transcript_59910-T1 Valid prediction for snap_scaffold_8-snap.2851-T1 Valid prediction for GlimmerHMM_glimmerT_21010-T1 Valid prediction for GlimmerHMM_glimmerT_21012-T1 Valid prediction for Augustus_model.g13973.t1 Valid prediction for Augustus_model.g13964.t1 Valid prediction for HiQ_model.g13971.t1 Valid prediction for Augustus_model.g13976.t1 Valid prediction for pasa_asmbl_53419.p1 Valid prediction for GlimmerHMM_glimmerT_21000-T1 Valid prediction for snap_scaffold_8-snap.2866-T1 Couldn't classify 107300, 107390 Sorry, prediction pasa_asmbl_53421.p1 fails validation. (CAG) TG 107300-107390 GT CAG (TTC) AG 107824-107926 GT AGG (CTT) AG 109511-109619 GT AGG (GTG) AG 110689-110807 GT AGG (GAA) AG 111034-111121 GT GAG -recovered pasa_asmbl_53421.p1, terminal, 111034, 111121 -recovered pasa_asmbl_53421.p1, internal, 107824, 107926 -recovered pasa_asmbl_53421.p1, internal, 109511, 109619 -recovered pasa_asmbl_53421.p1, internal, 110689, 110807 -recovered pasa_asmbl_53421.p1, internal, 111034, 111121 Valid prediction for GlimmerHMM_glimmerT_20996-T1 Valid prediction for snap_scaffold_8-snap.2871-T1 Valid prediction for GlimmerHMM_glimmerT_21003-T1 Valid prediction for GlimmerHMM_glimmerT_20994-T1 Valid prediction for snap_scaffold_8-snap.2868-T1 Valid prediction for GlimmerHMM_glimmerT_20989-T1 Valid prediction for snap_scaffold_8-snap.2853-T1 Valid prediction for snap_scaffold_8-snap.2869-T1 Valid prediction for snap_scaffold_8-snap.2856-T1 Valid prediction for snap_scaffold_8-snap.2860-T1 Valid prediction for GlimmerHMM_glimmerT_20990-T1 Couldn't classify 83835, 83885 Sorry, prediction pasa_asmbl_53418.p1 fails validation. (ATG) CA 80131-80221 GT AGG (AAA) AG 80460-80689 GT AGG (GAC) AG 81067-81236 GT AGG (GAA) AG 81565-81679 GT AGG (GAC) AG 81790-81882 GT AGG (GTG) AG 82081-82218 GT AGG (GCT) AG 82611-82730 GT AGG (GAC) AG 82830-82937 GT AGG (CTG) AG 83124-83270 GT TGG (CTG) AG 83367-83512 GT AAG (GAT) AG 83632-83728 GT AGG (ATC) AG 83835-83885 AG GGA -recovered pasa_asmbl_53418.p1, initial, 80131, 80221 -recovered pasa_asmbl_53418.p1, internal, 80460, 80689 -recovered pasa_asmbl_53418.p1, internal, 81067, 81236 -recovered pasa_asmbl_53418.p1, internal, 81565, 81679 -recovered pasa_asmbl_53418.p1, internal, 81790, 81882 -recovered pasa_asmbl_53418.p1, internal, 82081, 82218 -recovered pasa_asmbl_53418.p1, internal, 82611, 82730 -recovered pasa_asmbl_53418.p1, internal, 82830, 82937 -recovered pasa_asmbl_53418.p1, internal, 83124, 83270 -recovered pasa_asmbl_53418.p1, internal, 83367, 83512 -recovered pasa_asmbl_53418.p1, internal, 83632, 83728 Valid prediction for GlimmerHMM_glimmerT_21016-T1 Valid prediction for GlimmerHMM_glimmerT_20986-T1 Valid prediction for Augustus_model.g13975.t1 Valid prediction for GlimmerHMM_glimmerT_21004-T1 Valid prediction for snap_scaffold_8-snap.2858-T1 Valid prediction for GlimmerHMM_glimmerT_21014-T1 Valid prediction for Augustus_model.g13978.t1 Valid prediction for snap_scaffold_8-snap.2872-T1 Valid prediction for GlimmerHMM_glimmerT_20987-T1 Valid prediction for snap_scaffold_8-snap.2875-T1 Couldn't classify 37105, 37634 Sorry, prediction pasa_asmbl_53412.p1 fails validation. (ATG) CC 36047-36283 GT CGG (ATC) AG 36810-36951 GT CGG (GCC) AG 37105-37634 CT ACC -recovered pasa_asmbl_53412.p1, initial, 36047, 36283 -recovered pasa_asmbl_53412.p1, internal, 36810, 36951 Valid prediction for GlimmerHMM_glimmerT_21005-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_21007-T1 Valid prediction for GlimmerHMM_glimmerT_21015-T1 Valid prediction for GlimmerHMM_glimmerT_21008-T1 Valid prediction for GlimmerHMM_glimmerT_20995-T1 Couldn't classify 133040, 133093 Couldn't classify 135362, 135401 Sorry, prediction pasa_asmbl_52343.p1 fails validation. (CAG) TT 133040-133093 GT AGG (GGT) AG 134132-134380 GT AGG (GGG) AG 134638-134780 GT AGG (TCC) AG 135362-135401 AC TGA add_exon() Sorry, pasa_asmbl_52343.p1 134638-134780-terminal-2 is invalid. -recovered pasa_asmbl_52343.p1, terminal, 134638, 134780 -recovered pasa_asmbl_52343.p1, internal, 134132, 134380 -recovered pasa_asmbl_52343.p1, internal, 134638, 134780 Valid prediction for snap_scaffold_8-snap.2870-T1 Valid prediction for Augustus_model.g13974.t1 Valid prediction for GlimmerHMM_glimmerT_20999-T1 Valid prediction for GlimmerHMM_glimmerT_20998-T1 Valid prediction for snap_scaffold_8-snap.2863-T1 Valid prediction for snap_scaffold_8-snap.2849-T1 Valid prediction for snap_scaffold_8-snap.2864-T1 Valid prediction for Augustus_model.g13969.t1 Valid prediction for GlimmerHMM_glimmerT_21018-T1 Valid prediction for CodingQuarry_transcript_59908-T1 Valid prediction for snap_scaffold_8-snap.2879-T1 Couldn't classify 135605, 135834 Sorry, prediction pasa_asmbl_52341.p1 fails validation. (GGC) TA 135605-135834 GT AGG (CTG) AG 135989-136080 GT AGG (GTG) AG 136327-136487 GT AGG (GGT) AG 136832-136966 GT ATG (GTG) AG 137871-137982 GT CTG (ACC) AG 138206-138319 GT AGG (ATT) AG 139071-139270 GT AGG (GCG) AG 139915-140118 GT AGG (GTG) AG 140278-140439 GT AGG (GGA) AG 140542-140791 GT AAG (AAA) AG 140989-141200 CA AGC -recovered pasa_asmbl_52341.p1, terminal, 140989, 141200 -recovered pasa_asmbl_52341.p1, internal, 135989, 136080 -recovered pasa_asmbl_52341.p1, internal, 136327, 136487 -recovered pasa_asmbl_52341.p1, internal, 136832, 136966 -recovered pasa_asmbl_52341.p1, internal, 137871, 137982 -recovered pasa_asmbl_52341.p1, internal, 138206, 138319 -recovered pasa_asmbl_52341.p1, internal, 139071, 139270 -recovered pasa_asmbl_52341.p1, internal, 139915, 140118 -recovered pasa_asmbl_52341.p1, internal, 140278, 140439 -recovered pasa_asmbl_52341.p1, internal, 140542, 140791 Valid prediction for snap_scaffold_8-snap.2877-T1 Valid prediction for GlimmerHMM_glimmerT_21002-T1 Valid prediction for GlimmerHMM_glimmerT_21017-T1 Valid prediction for GlimmerHMM_glimmerT_20991-T1 Valid prediction for Augustus_model.g13977.t1 Valid prediction for Augustus_model.g13968.t1 Valid prediction for snap_scaffold_8-snap.2852-T1 Valid prediction for snap_scaffold_8-snap.2876-T1 Valid prediction for GlimmerHMM_glimmerT_21011-T1 Valid prediction for Augustus_model.g13965.t1 Valid prediction for GlimmerHMM_glimmerT_21006-T1 Valid prediction for GlimmerHMM_glimmerT_20993-T1 Valid prediction for snap_scaffold_8-snap.2850-T1 Valid prediction for Augustus_model.g13967.t1 Valid prediction for snap_scaffold_8-snap.2878-T1 Valid prediction for snap_scaffold_8-snap.2874-T1 Valid prediction for Augustus_model.g13979.t1 Valid prediction for GlimmerHMM_glimmerT_21009-T1 Valid prediction for GlimmerHMM_glimmerT_20988-T1 Valid prediction for GlimmerHMM_glimmerT_21013-T1 Valid prediction for snap_scaffold_8-snap.2867-T1 Couldn't classify 152898, 152963 Sorry, prediction pasa_asmbl_52339.p1 fails validation. (CAA) CA 152898-152963 GT TGG (GGC) AG 153695-153786 GT AGG (AAC) AG 154599-154764 CT AAC -recovered pasa_asmbl_52339.p1, terminal, 154599, 154764 -recovered pasa_asmbl_52339.p1, internal, 153695, 153786 Valid prediction for GlimmerHMM_glimmerT_20992-T1 Couldn't classify 110529, 111413 Sorry, prediction pasa_asmbl_52344.p1 fails validation. (ATG) AC 110529-111413 GA GGG Valid prediction for snap_scaffold_8-snap.2855-T1 Valid prediction for snap_scaffold_8-snap.2862-T1 Valid prediction for snap_scaffold_8-snap.2859-T1 Valid prediction for GlimmerHMM_glimmerT_20997-T1 Valid prediction for snap_scaffold_8-snap.2873-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 45468, rend_intergenic: 44075 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57313, rend_intergenic: 46320 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 87048, rend_intergenic: 81009 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 102246, rend_intergenic: 100165 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 111121, rend_intergenic: 103608 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134581, rend_intergenic: 128650 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 141594, rend_intergenic: 134797 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 156684, rend_intergenic: 147794 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 185274 -exon list size: 334 building trellis 0.3 0.6 0.9 1.2 1.5 1.8 2.1 2.4 2.7 3.0 3.3 3.6 3.9 4.2 4.5 4.8 5.1 5.4 5.7 6.0 6.2 6.5 6.8 7.1 7.4 7.7 8.0 8.3 8.6 8.9 9.2 9.5 9.8 10.1 10.4 10.7 11.0 11.3 11.6 11.9 12.2 12.5 12.8 13.1 13.4 13.7 14.0 14.3 14.6 14.9 15.2 15.5 15.8 16.1 16.4 16.7 17.0 17.3 17.6 17.9 18.2 18.5 18.8 19.0 19.3 19.6 19.9 20.2 20.5 20.8 21.1 21.4 21.7 22.0 22.3 22.6 22.9 23.2 23.5 23.8 24.1 24.4 24.7 25.0 25.3 25.6 25.9 26.2 26.5 26.8 27.1 27.4 27.7 28.0 28.3 28.6 28.9 29.2 29.5 29.8 30.1 30.4 30.7 31.0 31.2 31.5 31.8 32.1 32.4 32.7 33.0 33.3 33.6 33.9 34.2 34.5 34.8 35.1 35.4 35.7 36.0 36.3 36.6 36.9 37.2 37.5 37.8 38.1 38.4 38.7 39.0 39.3 39.6 39.9 40.2 40.5 40.8 41.1 41.4 41.7 42.0 42.3 42.6 42.9 43.2 43.5 43.8 44.0 44.3 44.6 44.9 45.2 45.5 45.8 46.1 46.4 46.7 47.0 47.3 47.6 47.9 48.2 48.5 48.8 49.1 49.4 49.7 50.0 50.3 50.6 50.9 51.2 51.5 51.8 52.1 52.4 52.7 53.0 53.3 53.6 53.9 54.2 54.5 54.8 55.1 55.4 55.7 56.0 56.2 56.5 56.8 57.1 57.4 57.7 58.0 58.3 58.6 58.9 59.2 59.5 59.8 60.1 60.4 60.7 61.0 61.3 61.6 61.9 62.2 62.5 62.8 63.1 63.4 63.7 64.0 64.3 64.6 64.9 65.2 65.5 65.8 66.1 66.4 66.7 67.0 67.3 67.6 67.9 68.2 68.5 68.8 69.0 69.3 69.6 69.9 70.2 70.5 70.8 71.1 71.4 71.7 72.0 72.3 72.6 72.9 73.2 73.5 73.8 74.1 74.4 74.7 75.0 75.3 75.6 75.9 76.2 76.5 76.8 77.1 77.4 77.7 78.0 78.3 78.6 78.9 79.2 79.5 79.8 80.1 80.4 80.7 81.0 81.2 81.5 81.8 82.1 82.4 82.7 83.0 83.3 83.6 83.9 84.2 84.5 84.8 85.1 85.4 85.7 86.0 86.3 86.6 86.9 87.2 87.5 87.8 88.1 88.4 88.7 89.0 89.3 89.6 89.9 90.2 90.5 90.8 91.1 91.4 91.7 92.0 92.3 92.6 92.9 93.2 93.5 93.8 94.0 94.3 94.6 94.9 95.2 95.5 95.8 96.1 96.4 96.7 97.0 97.3 97.6 97.9 98.2 98.5 98.8 99.1 99.4 99.7 -found 24 predictions from path traversal Error with prediction: snap lend_intergenic: 45468, rend_intergenic: 44075 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57313, rend_intergenic: 46320 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 87048, rend_intergenic: 81009 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 102246, rend_intergenic: 100165 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 111121, rend_intergenic: 103608 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134581, rend_intergenic: 128650 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 141594, rend_intergenic: 134797 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 156684, rend_intergenic: 147794 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 21 predictions persist after filtering for low support -building DP trellis -building trellis in range 168176 - 185274 -exon list size: 3 building trellis 20.0 40.0 60.0 80.0 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support