-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_2055510-2187173 -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_25-snap.433-T1 Valid prediction for snap_scaffold_25-snap.410-T1 Valid prediction for GlimmerHMM_glimmerT_53687-T1 Valid prediction for GlimmerHMM_glimmerT_53684-T1 Valid prediction for snap_scaffold_25-snap.403-T1 Valid prediction for GlimmerHMM_glimmerT_53691-T1 Valid prediction for snap_scaffold_25-snap.412-T1 Valid prediction for snap_scaffold_25-snap.416-T1 Valid prediction for GlimmerHMM_glimmerT_53692-T1 Couldn't classify 71454, 71570 Couldn't classify 77336, 77425 Sorry, prediction pasa_asmbl_33386.p1 fails validation. (GTG) CC 71454-71570 GT AGG (ACC) AG 74374-74463 GT AGG (TTG) AG 75458-75553 GT TGG (GTG) AG 75640-75780 GT AGG (GAC) AG 75875-75988 GT AGG (GTG) AG 77336-77425 GT ATG -recovered pasa_asmbl_33386.p1, internal, 74374, 74463 -recovered pasa_asmbl_33386.p1, internal, 75458, 75553 -recovered pasa_asmbl_33386.p1, internal, 75640, 75780 -recovered pasa_asmbl_33386.p1, internal, 75875, 75988 -recovered pasa_asmbl_33386.p1, internal, 77336, 77425 Valid prediction for Augustus_model.g35663.t1 Valid prediction for snap_scaffold_25-snap.405-T1 Valid prediction for CodingQuarry_transcript_38650-T1 Valid prediction for Augustus_model.g35661.t1 Valid prediction for snap_scaffold_25-snap.432-T1 Valid prediction for snap_scaffold_25-snap.426-T1 Valid prediction for GlimmerHMM_glimmerT_53683-T1 Couldn't classify 48322, 48407 Couldn't classify 50803, 51015 Sorry, prediction pasa_asmbl_33383.p1 fails validation. (CTG) AC 48322-48407 GT GGG (AGA) AG 49528-49596 GT AAG (GTA) AG 50197-50326 GT AGG (GAC) AG 50803-51015 GT AGG -recovered pasa_asmbl_33383.p1, internal, 49528, 49596 -recovered pasa_asmbl_33383.p1, internal, 50197, 50326 -recovered pasa_asmbl_33383.p1, internal, 50803, 51015 Couldn't classify 86396, 86548 Couldn't classify 90047, 90190 Sorry, prediction pasa_asmbl_33388.p1 fails validation. (TTC) AG 86396-86548 GT ACG (AAC) AG 87412-87570 GT AGG (GTA) AG 88262-88362 GT AGG (GAT) AG 89124-89316 GT AGG (GAC) AG 90047-90190 GT TGG -recovered pasa_asmbl_33388.p1, internal, 86396, 86548 -recovered pasa_asmbl_33388.p1, internal, 87412, 87570 -recovered pasa_asmbl_33388.p1, internal, 88262, 88362 -recovered pasa_asmbl_33388.p1, internal, 89124, 89316 -recovered pasa_asmbl_33388.p1, internal, 90047, 90190 Valid prediction for GlimmerHMM_glimmerT_53693-T1 Valid prediction for snap_scaffold_25-snap.419-T1 Valid prediction for Augustus_model.g35659.t1 Valid prediction for snap_scaffold_25-snap.422-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for snap_scaffold_25-snap.414-T1 Valid prediction for GlimmerHMM_glimmerT_53695-T1 Valid prediction for Augustus_model.g35662.t1 Couldn't classify 67496, 67537 Couldn't classify 70354, 70443 Sorry, prediction pasa_asmbl_33385.p1 fails validation. (CAG) AG 67496-67537 GT CGG (TGG) AG 68886-68987 GT ACG (GTT) AG 69142-69228 GT AGG (GAC) AG 70354-70443 AA AGA -recovered pasa_asmbl_33385.p1, internal, 67496, 67537 -recovered pasa_asmbl_33385.p1, internal, 68886, 68987 -recovered pasa_asmbl_33385.p1, internal, 69142, 69228 Valid prediction for GlimmerHMM_glimmerT_53690-T1 Couldn't classify 52900, 52911 Couldn't classify 55202, 55353 Sorry, prediction pasa_asmbl_33384.p1 fails validation. (GAC) CG 52900-52911 GT AGG (AAC) AG 53036-53198 GT AGG (AGA) AG 54354-54496 GT AGG (GAA) AG 55013-55106 GT AGG (CCC) AG 55202-55353 AC ACA -recovered pasa_asmbl_33384.p1, internal, 53036, 53198 -recovered pasa_asmbl_33384.p1, internal, 54354, 54496 -recovered pasa_asmbl_33384.p1, internal, 55013, 55106 Valid prediction for snap_scaffold_25-snap.409-T1 Valid prediction for GlimmerHMM_glimmerT_53688-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_25-snap.420-T1 Valid prediction for snap_scaffold_25-snap.427-T1 Valid prediction for snap_scaffold_25-snap.408-T1 Valid prediction for snap_scaffold_25-snap.418-T1 Sorry, intron length (6) is less than minimum required (10) Valid prediction for snap_scaffold_25-snap.434-T1 Valid prediction for snap_scaffold_25-snap.429-T1 Valid prediction for snap_scaffold_25-snap.423-T1 Valid prediction for snap_scaffold_25-snap.406-T1 Valid prediction for GlimmerHMM_glimmerT_53685-T1 Valid prediction for GlimmerHMM_glimmerT_53694-T1 Valid prediction for snap_scaffold_25-snap.415-T1 Valid prediction for snap_scaffold_25-snap.430-T1 Valid prediction for snap_scaffold_25-snap.425-T1 Couldn't classify 5542, 5877 Sorry, prediction pasa_asmbl_34066.p1 fails validation. (GAC) GC 5542-5877 GC AGG Valid prediction for snap_scaffold_25-snap.413-T1 Valid prediction for snap_scaffold_25-snap.417-T1 Valid prediction for snap_scaffold_25-snap.411-T1 Valid prediction for Augustus_model.g35664.t1 Valid prediction for HiQ_model.g35658.t1 Valid prediction for GlimmerHMM_glimmerT_53689-T1 Valid prediction for GlimmerHMM_glimmerT_53696-T1 Valid prediction for snap_scaffold_25-snap.404-T1 Valid prediction for snap_scaffold_25-snap.407-T1 Valid prediction for snap_scaffold_25-snap.428-T1 Valid prediction for GlimmerHMM_glimmerT_53686-T1 Valid prediction for snap_scaffold_25-snap.402-T1 Valid prediction for CodingQuarry_transcript_38649-T1 Valid prediction for snap_scaffold_25-snap.424-T1 Valid prediction for GlimmerHMM_glimmerT_53682-T1 Valid prediction for CodingQuarry_transcript_38648-T1 Valid prediction for snap_scaffold_25-snap.421-T1 Valid prediction for Augustus_model.g35660.t1 Valid prediction for pasa_asmbl_34060.p1 Couldn't classify 70989, 71429 Couldn't classify 71595, 71657 Sorry, prediction pasa_asmbl_34063.p1 fails validation. (CCC) AC 70989-71429 GT AGG (GAA) AG 71595-71657 GA ACG Valid prediction for snap_scaffold_25-snap.431-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10780, rend_intergenic: 8657 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 30641, rend_intergenic: 22044 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 38198, rend_intergenic: 32701 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 45489, rend_intergenic: 43397 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 51214, rend_intergenic: 49912 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 55368, rend_intergenic: 53065 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 60922, rend_intergenic: 58878 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 69270, rend_intergenic: 62945 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 72722, rend_intergenic: 69335 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 101439, rend_intergenic: 72866 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 117875, rend_intergenic: 105465 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 129330, rend_intergenic: 125008 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 131664 -exon list size: 281 building trellis 0.4 0.7 1.1 1.4 1.8 2.1 2.5 2.8 3.2 3.5 3.9 4.2 4.6 4.9 5.3 5.7 6.0 6.4 6.7 7.1 7.4 7.8 8.1 8.5 8.8 9.2 9.5 9.9 10.2 10.6 11.0 11.3 11.7 12.0 12.4 12.7 13.1 13.4 13.8 14.1 14.5 14.8 15.2 15.5 15.9 16.3 16.6 17.0 17.3 17.7 18.0 18.4 18.7 19.1 19.4 19.8 20.1 20.5 20.8 21.2 21.6 21.9 22.3 22.6 23.0 23.3 23.7 24.0 24.4 24.7 25.1 25.4 25.8 26.1 26.5 26.9 27.2 27.6 27.9 28.3 28.6 29.0 29.3 29.7 30.0 30.4 30.7 31.1 31.4 31.8 32.2 32.5 32.9 33.2 33.6 33.9 34.3 34.6 35.0 35.3 35.7 36.0 36.4 36.7 37.1 37.5 37.8 38.2 38.5 38.9 39.2 39.6 39.9 40.3 40.6 41.0 41.3 41.7 42.0 42.4 42.8 43.1 43.5 43.8 44.2 44.5 44.9 45.2 45.6 45.9 46.3 46.6 47.0 47.3 47.7 48.1 48.4 48.8 49.1 49.5 49.8 50.2 50.5 50.9 51.2 51.6 51.9 52.3 52.7 53.0 53.4 53.7 54.1 54.4 54.8 55.1 55.5 55.8 56.2 56.5 56.9 57.2 57.6 58.0 58.3 58.7 59.0 59.4 59.7 60.1 60.4 60.8 61.1 61.5 61.8 62.2 62.5 62.9 63.3 63.6 64.0 64.3 64.7 65.0 65.4 65.7 66.1 66.4 66.8 67.1 67.5 67.8 68.2 68.6 68.9 69.3 69.6 70.0 70.3 70.7 71.0 71.4 71.7 72.1 72.4 72.8 73.1 73.5 73.9 74.2 74.6 74.9 75.3 75.6 76.0 76.3 76.7 77.0 77.4 77.7 78.1 78.4 78.8 79.2 79.5 79.9 80.2 80.6 80.9 81.3 81.6 82.0 82.3 82.7 83.0 83.4 83.7 84.1 84.5 84.8 85.2 85.5 85.9 86.2 86.6 86.9 87.3 87.6 88.0 88.3 88.7 89.0 89.4 89.8 90.1 90.5 90.8 91.2 91.5 91.9 92.2 92.6 92.9 93.3 93.6 94.0 94.3 94.7 95.1 95.4 95.8 96.1 96.5 96.8 97.2 97.5 97.9 98.2 98.6 98.9 99.3 99.6 -found 16 predictions from path traversal Error with prediction: snap lend_intergenic: 10780, rend_intergenic: 8657 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 30641, rend_intergenic: 22044 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 38198, rend_intergenic: 32701 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 45489, rend_intergenic: 43397 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 51214, rend_intergenic: 49912 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 55368, rend_intergenic: 53065 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 60922, rend_intergenic: 58878 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 69270, rend_intergenic: 62945 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 72722, rend_intergenic: 69335 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 101439, rend_intergenic: 72866 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 117875, rend_intergenic: 105465 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 129330, rend_intergenic: 125008 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 11 predictions persist after filtering for low support