-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_2/scaffold_2_5784087-5969055 -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 73798, 73843 Sorry, prediction Augustus_model.g2586.t1 fails validation. (CCA) AG 73798-73843 GT GAG (GGT) AG 74452-75516 GT GCG (AAG) AG 75736-75924 GT AGG (GCC) AG 76430-76558 GT AGG (ATC) AG 76966-77066 GT AGG (GTG) AG 77697-77823 GT AGG (GTG) AG 78172-78331 GT GGG (ACT) AG 78447-78558 GT CCG (GTG) AG 79092-79200 GT AGG (ATG) AG 79498-79599 GT AGG (GAT) AG 80194-80289 GT CTG (TTT) AG 80801-80888 GT TGG (TGA) AG 81259-81425 GT ACG (ATT) AG 82144-82292 GT AGG (TGT) AG 82468-82579 GT GGG (GAC) AG 83030-83166 GT GTG (GGA) AG 83752-83808 GT AGG (AAT) AG 83898-84080 GT TGG (TGG) AG 84303-84417 GT AGG (TTT) AG 85398-85607 GT CTG (GGC) AG 86034-86207 GT TGG (ATC) AG 86556-86692 GT AGG (GAG) AG 87007-87107 GT AGG (ACC) AG 87433-87662 GT ATG (TTC) AG 88138-88319 GT AGG (ATC) AG 88864-88930 GT AGG (GAC) AG 89238-89384 GT TGG (ACC) AG 90654-90810 GT CGG (AGT) AG 90912-91012 GT ACG (GTG) AG 91408-91492 GT GAG (GGA) AG 92066-92217 GT AGG (GGA) AG 92463-92623 GT AGG (CCT) AG 93969-94101 GA GAG -recovered Augustus_model.g2586.t1, initial, 79498, 79599 -recovered Augustus_model.g2586.t1, terminal, 93969, 94101 -recovered Augustus_model.g2586.t1, internal, 73798, 73843 -recovered Augustus_model.g2586.t1, internal, 74452, 75516 -recovered Augustus_model.g2586.t1, internal, 75736, 75924 -recovered Augustus_model.g2586.t1, internal, 76430, 76558 -recovered Augustus_model.g2586.t1, internal, 76966, 77066 -recovered Augustus_model.g2586.t1, internal, 77697, 77823 -recovered Augustus_model.g2586.t1, internal, 78172, 78331 -recovered Augustus_model.g2586.t1, internal, 78447, 78558 -recovered Augustus_model.g2586.t1, internal, 79092, 79200 -recovered Augustus_model.g2586.t1, internal, 79498, 79599 -recovered Augustus_model.g2586.t1, internal, 80194, 80289 -recovered Augustus_model.g2586.t1, internal, 80801, 80888 -recovered Augustus_model.g2586.t1, internal, 81259, 81425 -recovered Augustus_model.g2586.t1, internal, 82144, 82292 -recovered Augustus_model.g2586.t1, internal, 82468, 82579 -recovered Augustus_model.g2586.t1, internal, 83030, 83166 -recovered Augustus_model.g2586.t1, internal, 83752, 83808 -recovered Augustus_model.g2586.t1, internal, 83898, 84080 -recovered Augustus_model.g2586.t1, internal, 84303, 84417 -recovered Augustus_model.g2586.t1, internal, 85398, 85607 -recovered Augustus_model.g2586.t1, internal, 86034, 86207 -recovered Augustus_model.g2586.t1, internal, 86556, 86692 -recovered Augustus_model.g2586.t1, internal, 87007, 87107 -recovered Augustus_model.g2586.t1, internal, 87433, 87662 -recovered Augustus_model.g2586.t1, internal, 88138, 88319 -recovered Augustus_model.g2586.t1, internal, 88864, 88930 -recovered Augustus_model.g2586.t1, internal, 89238, 89384 -recovered Augustus_model.g2586.t1, internal, 90654, 90810 -recovered Augustus_model.g2586.t1, internal, 90912, 91012 -recovered Augustus_model.g2586.t1, internal, 91408, 91492 -recovered Augustus_model.g2586.t1, internal, 92066, 92217 -recovered Augustus_model.g2586.t1, internal, 92463, 92623 Valid prediction for Augustus_model.g2591.t1 Valid prediction for snap_scaffold_2-snap.1300-T1 Valid prediction for GlimmerHMM_glimmerT_3871-T1 Valid prediction for snap_scaffold_2-snap.1320-T1 Valid prediction for Augustus_model.g2590.t1 Valid prediction for GlimmerHMM_glimmerT_3866-T1 Valid prediction for snap_scaffold_2-snap.1321-T1 Valid prediction for GlimmerHMM_glimmerT_3877-T1 Valid prediction for GlimmerHMM_glimmerT_3872-T1 Valid prediction for snap_scaffold_2-snap.1304-T1 Valid prediction for GlimmerHMM_glimmerT_3868-T1 Valid prediction for snap_scaffold_2-snap.1301-T1 Valid prediction for Augustus_model.g2592.t1 Valid prediction for GlimmerHMM_glimmerT_3873-T1 Valid prediction for snap_scaffold_2-snap.1307-T1 Valid prediction for snap_scaffold_2-snap.1312-T1 Valid prediction for GlimmerHMM_glimmerT_3858-T1 Valid prediction for snap_scaffold_2-snap.1295-T1 Valid prediction for GlimmerHMM_glimmerT_3862-T1 Valid prediction for GlimmerHMM_glimmerT_3870-T1 Valid prediction for snap_scaffold_2-snap.1287-T1 Valid prediction for snap_scaffold_2-snap.1290-T1 Valid prediction for GlimmerHMM_glimmerT_3869-T1 Valid prediction for snap_scaffold_2-snap.1315-T1 Couldn't classify 111567, 111625 Sorry, prediction pasa_asmbl_24446.p1 fails validation. (GAG) GC 111567-111625 GT CAG (TGT) AG 111838-111979 GT AGG (CTG) AG 112090-112284 GT AGG (GTG) AG 112556-112688 GT AGG (CTC) AG 113175-113388 GT AGG (GGG) AG 113593-113786 GT AGG (TGG) AG 114112-114203 GT GAG -recovered pasa_asmbl_24446.p1, terminal, 114112, 114203 -recovered pasa_asmbl_24446.p1, internal, 111838, 111979 -recovered pasa_asmbl_24446.p1, internal, 112090, 112284 -recovered pasa_asmbl_24446.p1, internal, 112556, 112688 -recovered pasa_asmbl_24446.p1, internal, 113175, 113388 -recovered pasa_asmbl_24446.p1, internal, 113593, 113786 -recovered pasa_asmbl_24446.p1, internal, 114112, 114203 Valid prediction for snap_scaffold_2-snap.1291-T1 Valid prediction for Augustus_model.g2581.t1 Valid prediction for Augustus_model.g2588.t1 Valid prediction for snap_scaffold_2-snap.1289-T1 Valid prediction for Augustus_model.g2587.t1 Valid prediction for snap_scaffold_2-snap.1294-T1 Valid prediction for CodingQuarry_transcript_28565-T1 Valid prediction for snap_scaffold_2-snap.1306-T1 Valid prediction for GlimmerHMM_glimmerT_3879-T1 Valid prediction for Augustus_model.g2584.t1 Couldn't classify 108630, 108734 Couldn't classify 109016, 109435 Sorry, prediction pasa_asmbl_25355.p1 fails validation. (CTG) CC 108630-108734 GT CGG (GGG) AG 109016-109435 AT ACA Valid prediction for GlimmerHMM_glimmerT_3878-T1 Valid prediction for snap_scaffold_2-snap.1305-T1 Valid prediction for snap_scaffold_2-snap.1303-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_2-snap.1297-T1 Valid prediction for snap_scaffold_2-snap.1317-T1 Valid prediction for GlimmerHMM_glimmerT_3859-T1 Valid prediction for snap_scaffold_2-snap.1286-T1 Valid prediction for pasa_asmbl_23163.p1 Valid prediction for GlimmerHMM_glimmerT_3861-T1 Valid prediction for GlimmerHMM_glimmerT_3880-T1 Valid prediction for GlimmerHMM_glimmerT_3876-T1 Valid prediction for snap_scaffold_2-snap.1310-T1 Valid prediction for Augustus_model.g2582.t1 Valid prediction for GlimmerHMM_glimmerT_3867-T1 Valid prediction for GlimmerHMM_glimmerT_3865-T1 Valid prediction for snap_scaffold_2-snap.1319-T1 Valid prediction for snap_scaffold_2-snap.1292-T1 Valid prediction for GlimmerHMM_glimmerT_3875-T1 Valid prediction for snap_scaffold_2-snap.1299-T1 Valid prediction for snap_scaffold_2-snap.1293-T1 Valid prediction for GlimmerHMM_glimmerT_3860-T1 Valid prediction for snap_scaffold_2-snap.1314-T1 Valid prediction for GlimmerHMM_glimmerT_3863-T1 Valid prediction for snap_scaffold_2-snap.1316-T1 Valid prediction for snap_scaffold_2-snap.1288-T1 Valid prediction for Augustus_model.g2593.t1 Valid prediction for snap_scaffold_2-snap.1311-T1 Valid prediction for snap_scaffold_2-snap.1296-T1 Valid prediction for snap_scaffold_2-snap.1318-T1 Couldn't classify 62016, 62061 Couldn't classify 62767, 62823 Sorry, prediction pasa_asmbl_24031.p1 fails validation. (ACA) TT 62016-62061 GT CGG (AGC) AG 62152-62210 GT AGG (GTG) AG 62495-62641 GT AGG (ATC) AG 62767-62823 GC TAG -recovered pasa_asmbl_24031.p1, internal, 62152, 62210 -recovered pasa_asmbl_24031.p1, internal, 62495, 62641 -recovered pasa_asmbl_24031.p1, internal, 62767, 62823 Valid prediction for Augustus_model.g2585.t1 Valid prediction for snap_scaffold_2-snap.1322-T1 Valid prediction for snap_scaffold_2-snap.1308-T1 Valid prediction for GlimmerHMM_glimmerT_3864-T1 Valid prediction for snap_scaffold_2-snap.1313-T1 Valid prediction for GlimmerHMM_glimmerT_3881-T1 Valid prediction for snap_scaffold_2-snap.1302-T1 Valid prediction for snap_scaffold_2-snap.1309-T1 Valid prediction for GlimmerHMM_glimmerT_3874-T1 Valid prediction for Augustus_model.g2583.t1 Valid prediction for snap_scaffold_2-snap.1298-T1 Valid prediction for Augustus_model.g2589.t1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 28020, rend_intergenic: 25186 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 34102, rend_intergenic: 28178 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 49437, rend_intergenic: 38756 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 69976, rend_intergenic: 64366 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 114203, rend_intergenic: 102463 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 133995, rend_intergenic: 133085 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 146479, rend_intergenic: 145416 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 150289, rend_intergenic: 146816 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 177375, rend_intergenic: 168008 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 184969 -exon list size: 352 building trellis 0.3 0.6 0.8 1.1 1.4 1.7 2.0 2.3 2.5 2.8 3.1 3.4 3.7 4.0 4.2 4.5 4.8 5.1 5.4 5.6 5.9 6.2 6.5 6.8 7.1 7.3 7.6 7.9 8.2 8.5 8.8 9.0 9.3 9.6 9.9 10.2 10.5 10.7 11.0 11.3 11.6 11.9 12.1 12.4 12.7 13.0 13.3 13.6 13.8 14.1 14.4 14.7 15.0 15.3 15.5 15.8 16.1 16.4 16.7 16.9 17.2 17.5 17.8 18.1 18.4 18.6 18.9 19.2 19.5 19.8 20.1 20.3 20.6 20.9 21.2 21.5 21.8 22.0 22.3 22.6 22.9 23.2 23.4 23.7 24.0 24.3 24.6 24.9 25.1 25.4 25.7 26.0 26.3 26.6 26.8 27.1 27.4 27.7 28.0 28.2 28.5 28.8 29.1 29.4 29.7 29.9 30.2 30.5 30.8 31.1 31.4 31.6 31.9 32.2 32.5 32.8 33.1 33.3 33.6 33.9 34.2 34.5 34.7 35.0 35.3 35.6 35.9 36.2 36.4 36.7 37.0 37.3 37.6 37.9 38.1 38.4 38.7 39.0 39.3 39.5 39.8 40.1 40.4 40.7 41.0 41.2 41.5 41.8 42.1 42.4 42.7 42.9 43.2 43.5 43.8 44.1 44.4 44.6 44.9 45.2 45.5 45.8 46.0 46.3 46.6 46.9 47.2 47.5 47.7 48.0 48.3 48.6 48.9 49.2 49.4 49.7 50.0 50.3 50.6 50.8 51.1 51.4 51.7 52.0 52.3 52.5 52.8 53.1 53.4 53.7 54.0 54.2 54.5 54.8 55.1 55.4 55.6 55.9 56.2 56.5 56.8 57.1 57.3 57.6 57.9 58.2 58.5 58.8 59.0 59.3 59.6 59.9 60.2 60.5 60.7 61.0 61.3 61.6 61.9 62.1 62.4 62.7 63.0 63.3 63.6 63.8 64.1 64.4 64.7 65.0 65.3 65.5 65.8 66.1 66.4 66.7 66.9 67.2 67.5 67.8 68.1 68.4 68.6 68.9 69.2 69.5 69.8 70.1 70.3 70.6 70.9 71.2 71.5 71.8 72.0 72.3 72.6 72.9 73.2 73.4 73.7 74.0 74.3 74.6 74.9 75.1 75.4 75.7 76.0 76.3 76.6 76.8 77.1 77.4 77.7 78.0 78.2 78.5 78.8 79.1 79.4 79.7 79.9 80.2 80.5 80.8 81.1 81.4 81.6 81.9 82.2 82.5 82.8 83.1 83.3 83.6 83.9 84.2 84.5 84.7 85.0 85.3 85.6 85.9 86.2 86.4 86.7 87.0 87.3 87.6 87.9 88.1 88.4 88.7 89.0 89.3 89.5 89.8 90.1 90.4 90.7 91.0 91.2 91.5 91.8 92.1 92.4 92.7 92.9 93.2 93.5 93.8 94.1 94.4 94.6 94.9 95.2 95.5 95.8 96.0 96.3 96.6 96.9 97.2 97.5 97.7 98.0 98.3 98.6 98.9 99.2 99.4 99.7 -found 24 predictions from path traversal Error with prediction: snap lend_intergenic: 28020, rend_intergenic: 25186 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 34102, rend_intergenic: 28178 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 49437, rend_intergenic: 38756 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 69976, rend_intergenic: 64366 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 114203, rend_intergenic: 102463 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 133995, rend_intergenic: 133085 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 146479, rend_intergenic: 145416 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 150289, rend_intergenic: 146816 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 177375, rend_intergenic: 168008 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 10 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 11977 -exon list size: 3 building trellis 20.0 40.0 60.0 80.0 -found 1 predictions from path traversal -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support