-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_8487828-8702962 -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_24-snap.1776-T1 Valid prediction for HiQ_model.g35304.t1 Valid prediction for snap_scaffold_24-snap.1791-T1 Valid prediction for Augustus_model.g35300.t1 Valid prediction for GlimmerHMM_glimmerT_53032-T1 Valid prediction for Augustus_model.g35317.t1 Valid prediction for GlimmerHMM_glimmerT_53023-T1 Valid prediction for GlimmerHMM_glimmerT_53029-T1 Valid prediction for snap_scaffold_24-snap.1792-T1 Valid prediction for GlimmerHMM_glimmerT_53019-T1 Valid prediction for snap_scaffold_24-snap.1779-T1 Valid prediction for snap_scaffold_24-snap.1796-T1 Valid prediction for GlimmerHMM_glimmerT_53004-T1 Valid prediction for snap_scaffold_24-snap.1763-T1 Valid prediction for snap_scaffold_24-snap.1802-T1 Valid prediction for GlimmerHMM_glimmerT_53012-T1 Valid prediction for Augustus_model.g35298.t1 Valid prediction for Augustus_model.g35321.t1 Couldn't classify 187351, 187455 Couldn't classify 192827, 192919 Sorry, prediction pasa_asmbl_32432.p1 fails validation. (GCC) CA 187351-187455 GT AGG (GCC) AG 190181-190255 GT ACG (ATG) AG 191660-191785 GT AGG (GAG) AG 192827-192919 AA CCA -recovered pasa_asmbl_32432.p1, initial, 191660, 191785 -recovered pasa_asmbl_32432.p1, internal, 190181, 190255 -recovered pasa_asmbl_32432.p1, internal, 191660, 191785 Valid prediction for snap_scaffold_24-snap.1777-T1 Valid prediction for snap_scaffold_24-snap.1810-T1 Valid prediction for GlimmerHMM_glimmerT_53016-T1 Couldn't classify 49369, 49434 Couldn't classify 52679, 52738 Sorry, prediction pasa_asmbl_32636.p1 fails validation. (GAT) TG 49369-49434 GT AGG (GTG) AG 51762-51865 GT GAG (GCC) AG 52250-52373 GT AGG (GGG) AG 52679-52738 GA GAG -recovered pasa_asmbl_32636.p1, internal, 51762, 51865 -recovered pasa_asmbl_32636.p1, internal, 52250, 52373 Valid prediction for HiQ_model.g35319.t1 Couldn't classify 149205, 149305 Sorry, prediction pasa_asmbl_32431.p1 fails validation. (AAG) CT 149205-149305 GT AGG (GTG) AG 150333-150399 GT TGG (GAG) AG 150843-150945 GT AGG (ATA) AG 153076-153242 GT AGG (GGC) AG 155050-155176 GT AGG (GTG) AG 155592-155635 TG GAT -recovered pasa_asmbl_32431.p1, terminal, 155592, 155635 -recovered pasa_asmbl_32431.p1, internal, 150333, 150399 -recovered pasa_asmbl_32431.p1, internal, 150843, 150945 -recovered pasa_asmbl_32431.p1, internal, 153076, 153242 -recovered pasa_asmbl_32431.p1, internal, 155050, 155176 Valid prediction for pasa_asmbl_32427.p1 Valid prediction for Augustus_model.g35313.t1 Valid prediction for GlimmerHMM_glimmerT_53028-T1 Valid prediction for snap_scaffold_24-snap.1787-T1 Valid prediction for GlimmerHMM_glimmerT_53027-T1 Valid prediction for GlimmerHMM_glimmerT_53034-T1 Valid prediction for snap_scaffold_24-snap.1808-T1 Couldn't classify 209468, 209560 Sorry, prediction pasa_asmbl_32433.p1 fails validation. (GTA) AG 209468-209560 GT AGG (AGG) AG 211705-211815 GT AGG (GCG) AG 212128-212232 GT AGG (CTG) AG 212438-212521 GT AGG (ATC) AG 212680-212751 GT AGG (AGT) AG 212893-213090 GT AGG (GAA) AG 213368-213511 GG GAG -recovered pasa_asmbl_32433.p1, terminal, 213368, 213511 -recovered pasa_asmbl_32433.p1, internal, 209468, 209560 -recovered pasa_asmbl_32433.p1, internal, 211705, 211815 -recovered pasa_asmbl_32433.p1, internal, 212128, 212232 -recovered pasa_asmbl_32433.p1, internal, 212438, 212521 -recovered pasa_asmbl_32433.p1, internal, 212680, 212751 -recovered pasa_asmbl_32433.p1, internal, 212893, 213090 Valid prediction for snap_scaffold_24-snap.1793-T1 Valid prediction for GlimmerHMM_glimmerT_53030-T1 Valid prediction for Augustus_model.g35316.t1 Valid prediction for GlimmerHMM_glimmerT_53011-T1 Valid prediction for Augustus_model.g35305.t1 Valid prediction for snap_scaffold_24-snap.1795-T1 Valid prediction for GlimmerHMM_glimmerT_53017-T1 Valid prediction for snap_scaffold_24-snap.1778-T1 Valid prediction for snap_scaffold_24-snap.1789-T1 Valid prediction for snap_scaffold_24-snap.1805-T1 Valid prediction for Augustus_model.g35320.t1 Couldn't classify 148708, 148776 Sorry, prediction pasa_asmbl_32428.p1 fails validation. (ATG) CT 145737-145874 GT AGG (ATG) AG 146067-146289 GT AGG (TGG) AG 147220-147427 GT CGG (GGT) AG 148155-148329 GT CCG (GTG) AG 148708-148776 GA GGG -recovered pasa_asmbl_32428.p1, initial, 145737, 145874 -recovered pasa_asmbl_32428.p1, initial, 146067, 146289 -recovered pasa_asmbl_32428.p1, internal, 146067, 146289 -recovered pasa_asmbl_32428.p1, internal, 147220, 147427 -recovered pasa_asmbl_32428.p1, internal, 148155, 148329 Valid prediction for snap_scaffold_24-snap.1767-T1 Valid prediction for Augustus_model.g35318.t1 Valid prediction for GlimmerHMM_glimmerT_53018-T1 Valid prediction for Augustus_model.g35315.t1 Valid prediction for GlimmerHMM_glimmerT_53035-T1 Sorry, intron length (3) is less than minimum required (10) Couldn't classify 69540, 69745 Sorry, prediction pasa_asmbl_32424.p1 fails validation. (AAA) AC 69540-69745 GT CGG (TTC) AG 70042-70150 GT AGG (CTG) AG 70302-70355 GT AGG (AGC) AG 70552-70614 GT AGG (CTC) AG 70729-70779 GT CAG (GAG) AG 70934-70981 GT CAG (TTC) AG 71319-71414 GT AGG (ACC) AG 71707-71814 GT TAG (ACC) AG 72102-72284 AC AGA -recovered pasa_asmbl_32424.p1, terminal, 72102, 72284 -recovered pasa_asmbl_32424.p1, internal, 70042, 70150 -recovered pasa_asmbl_32424.p1, internal, 70302, 70355 -recovered pasa_asmbl_32424.p1, internal, 70552, 70614 -recovered pasa_asmbl_32424.p1, internal, 70729, 70779 -recovered pasa_asmbl_32424.p1, internal, 70934, 70981 -recovered pasa_asmbl_32424.p1, internal, 71319, 71414 -recovered pasa_asmbl_32424.p1, internal, 71707, 71814 Valid prediction for Augustus_model.g35301.t1 Valid prediction for GlimmerHMM_glimmerT_53022-T1 Valid prediction for snap_scaffold_24-snap.1798-T1 Valid prediction for HiQ_model.g35306.t1 Valid prediction for Augustus_model.g35299.t1 Valid prediction for snap_scaffold_24-snap.1782-T1 Valid prediction for snap_scaffold_24-snap.1769-T1 Valid prediction for snap_scaffold_24-snap.1797-T1 Valid prediction for GlimmerHMM_glimmerT_53025-T1 Valid prediction for Augustus_model.g35309.t1 Valid prediction for snap_scaffold_24-snap.1781-T1 Valid prediction for Augustus_model.g35314.t1 Couldn't classify 115537, 116044 Sorry, prediction Augustus_model.g35311.t1 fails validation. (GCA) TC 115537-116044 GT AGG (CTC) AG 116387-116616 GT AGG (CTT) AG 116827-116910 GT AGG (AGG) AG 117641-117973 GT AGG (GTG) AG 118224-118444 GT AGG (GAG) AG 118984-119193 GT AAG (GTC) AG 119602-119668 GT GAG (GCG) AG 119805-120005 GT CGG (CTG) AG 120265-120417 GT AGG (GCT) AG 121327-121395 GT AGG (GTT) AG 121624-121725 GT AGG (AGA) AG 124677-124939 GT ACG (AAG) AG 126261-126513 TG GAT -recovered Augustus_model.g35311.t1, terminal, 126261, 126513 -recovered Augustus_model.g35311.t1, internal, 116387, 116616 -recovered Augustus_model.g35311.t1, internal, 116827, 116910 -recovered Augustus_model.g35311.t1, internal, 117641, 117973 -recovered Augustus_model.g35311.t1, internal, 118224, 118444 -recovered Augustus_model.g35311.t1, internal, 118984, 119193 -recovered Augustus_model.g35311.t1, internal, 119602, 119668 -recovered Augustus_model.g35311.t1, internal, 119805, 120005 -recovered Augustus_model.g35311.t1, internal, 120265, 120417 -recovered Augustus_model.g35311.t1, internal, 121327, 121395 -recovered Augustus_model.g35311.t1, internal, 121624, 121725 -recovered Augustus_model.g35311.t1, internal, 124677, 124939 Valid prediction for snap_scaffold_24-snap.1784-T1 Valid prediction for GlimmerHMM_glimmerT_53006-T1 Valid prediction for GlimmerHMM_glimmerT_53033-T1 Valid prediction for CodingQuarry_transcript_37378-T1 Valid prediction for GlimmerHMM_glimmerT_53015-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_24-snap.1786-T1 Valid prediction for GlimmerHMM_glimmerT_53010-T1 Valid prediction for snap_scaffold_24-snap.1790-T1 Valid prediction for GlimmerHMM_glimmerT_53026-T1 Valid prediction for snap_scaffold_24-snap.1771-T1 Valid prediction for snap_scaffold_24-snap.1807-T1 Valid prediction for snap_scaffold_24-snap.1788-T1 Valid prediction for Augustus_model.g35308.t1 Valid prediction for CodingQuarry_transcript_37377-T1 Valid prediction for GlimmerHMM_glimmerT_53008-T1 Valid prediction for snap_scaffold_24-snap.1799-T1 Valid prediction for snap_scaffold_24-snap.1803-T1 Valid prediction for snap_scaffold_24-snap.1766-T1 Valid prediction for HiQ_model.g35303.t1 Valid prediction for GlimmerHMM_glimmerT_53021-T1 Valid prediction for snap_scaffold_24-snap.1785-T1 Valid prediction for Augustus_model.g35310.t1 Valid prediction for snap_scaffold_24-snap.1775-T1 Valid prediction for GlimmerHMM_glimmerT_53014-T1 Valid prediction for Augustus_model.g35302.t1 Valid prediction for snap_scaffold_24-snap.1773-T1 Valid prediction for GlimmerHMM_glimmerT_53009-T1 Valid prediction for GlimmerHMM_glimmerT_53024-T1 Valid prediction for snap_scaffold_24-snap.1772-T1 Valid prediction for GlimmerHMM_glimmerT_53031-T1 Valid prediction for GlimmerHMM_glimmerT_53005-T1 Valid prediction for GlimmerHMM_glimmerT_53020-T1 Valid prediction for GlimmerHMM_glimmerT_53013-T1 Valid prediction for snap_scaffold_24-snap.1806-T1 Valid prediction for snap_scaffold_24-snap.1809-T1 Valid prediction for pasa_asmbl_33085.p1 Valid prediction for snap_scaffold_24-snap.1764-T1 Valid prediction for GlimmerHMM_glimmerT_53007-T1 Valid prediction for snap_scaffold_24-snap.1783-T1 Valid prediction for snap_scaffold_24-snap.1794-T1 Valid prediction for Augustus_model.g35312.t1 Valid prediction for snap_scaffold_24-snap.1762-T1 Valid prediction for snap_scaffold_24-snap.1768-T1 Valid prediction for snap_scaffold_24-snap.1780-T1 Valid prediction for snap_scaffold_24-snap.1804-T1 Valid prediction for snap_scaffold_24-snap.1765-T1 Valid prediction for snap_scaffold_24-snap.1770-T1 Valid prediction for snap_scaffold_24-snap.1774-T1 Valid prediction for snap_scaffold_24-snap.1800-T1 Sorry, intron length (7) is less than minimum required (10) Valid prediction for snap_scaffold_24-snap.1801-T1 Valid prediction for Augustus_model.g35307.t1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 31193, rend_intergenic: 13746 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 37338, rend_intergenic: 32268 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 53990, rend_intergenic: 39936 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 90194, rend_intergenic: 83819 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 105994, rend_intergenic: 104120 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 118429, rend_intergenic: 116839 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 168152, rend_intergenic: 163585 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 180103, rend_intergenic: 178804 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 187539, rend_intergenic: 182355 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 192118, rend_intergenic: 190460 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 201826, rend_intergenic: 198584 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 204576, rend_intergenic: 203520 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 208830, rend_intergenic: 205478 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 215135 -exon list size: 485 building trellis 0.2 0.4 0.6 0.8 1.0 1.2 1.4 1.6 1.8 2.1 2.3 2.5 2.7 2.9 3.1 3.3 3.5 3.7 3.9 4.1 4.3 4.5 4.7 4.9 5.1 5.3 5.5 5.7 6.0 6.2 6.4 6.6 6.8 7.0 7.2 7.4 7.6 7.8 8.0 8.2 8.4 8.6 8.8 9.0 9.2 9.4 9.7 9.9 10.1 10.3 10.5 10.7 10.9 11.1 11.3 11.5 11.7 11.9 12.1 12.3 12.5 12.7 12.9 13.1 13.3 13.6 13.8 14.0 14.2 14.4 14.6 14.8 15.0 15.2 15.4 15.6 15.8 16.0 16.2 16.4 16.6 16.8 17.0 17.2 17.5 17.7 17.9 18.1 18.3 18.5 18.7 18.9 19.1 19.3 19.5 19.7 19.9 20.1 20.3 20.5 20.7 20.9 21.1 21.4 21.6 21.8 22.0 22.2 22.4 22.6 22.8 23.0 23.2 23.4 23.6 23.8 24.0 24.2 24.4 24.6 24.8 25.1 25.3 25.5 25.7 25.9 26.1 26.3 26.5 26.7 26.9 27.1 27.3 27.5 27.7 27.9 28.1 28.3 28.5 28.7 29.0 29.2 29.4 29.6 29.8 30.0 30.2 30.4 30.6 30.8 31.0 31.2 31.4 31.6 31.8 32.0 32.2 32.4 32.6 32.9 33.1 33.3 33.5 33.7 33.9 34.1 34.3 34.5 34.7 34.9 35.1 35.3 35.5 35.7 35.9 36.1 36.3 36.6 36.8 37.0 37.2 37.4 37.6 37.8 38.0 38.2 38.4 38.6 38.8 39.0 39.2 39.4 39.6 39.8 40.0 40.2 40.5 40.7 40.9 41.1 41.3 41.5 41.7 41.9 42.1 42.3 42.5 42.7 42.9 43.1 43.3 43.5 43.7 43.9 44.1 44.4 44.6 44.8 45.0 45.2 45.4 45.6 45.8 46.0 46.2 46.4 46.6 46.8 47.0 47.2 47.4 47.6 47.8 48.0 48.3 48.5 48.7 48.9 49.1 49.3 49.5 49.7 49.9 50.1 50.3 50.5 50.7 50.9 51.1 51.3 51.5 51.7 52.0 52.2 52.4 52.6 52.8 53.0 53.2 53.4 53.6 53.8 54.0 54.2 54.4 54.6 54.8 55.0 55.2 55.4 55.6 55.9 56.1 56.3 56.5 56.7 56.9 57.1 57.3 57.5 57.7 57.9 58.1 58.3 58.5 58.7 58.9 59.1 59.3 59.5 59.8 60.0 60.2 60.4 60.6 60.8 61.0 61.2 61.4 61.6 61.8 62.0 62.2 62.4 62.6 62.8 63.0 63.2 63.4 63.7 63.9 64.1 64.3 64.5 64.7 64.9 65.1 65.3 65.5 65.7 65.9 66.1 66.3 66.5 66.7 66.9 67.1 67.4 67.6 67.8 68.0 68.2 68.4 68.6 68.8 69.0 69.2 69.4 69.6 69.8 70.0 70.2 70.4 70.6 70.8 71.0 71.3 71.5 71.7 71.9 72.1 72.3 72.5 72.7 72.9 73.1 73.3 73.5 73.7 73.9 74.1 74.3 74.5 74.7 74.9 75.2 75.4 75.6 75.8 76.0 76.2 76.4 76.6 76.8 77.0 77.2 77.4 77.6 77.8 78.0 78.2 78.4 78.6 78.9 79.1 79.3 79.5 79.7 79.9 80.1 80.3 80.5 80.7 80.9 81.1 81.3 81.5 81.7 81.9 82.1 82.3 82.5 82.8 83.0 83.2 83.4 83.6 83.8 84.0 84.2 84.4 84.6 84.8 85.0 85.2 85.4 85.6 85.8 86.0 86.2 86.4 86.7 86.9 87.1 87.3 87.5 87.7 87.9 88.1 88.3 88.5 88.7 88.9 89.1 89.3 89.5 89.7 89.9 90.1 90.3 90.6 90.8 91.0 91.2 91.4 91.6 91.8 92.0 92.2 92.4 92.6 92.8 93.0 93.2 93.4 93.6 93.8 94.0 94.3 94.5 94.7 94.9 95.1 95.3 95.5 95.7 95.9 96.1 96.3 96.5 96.7 96.9 97.1 97.3 97.5 97.7 97.9 98.2 98.4 98.6 98.8 99.0 99.2 99.4 99.6 99.8 -found 32 predictions from path traversal Error with prediction: snap lend_intergenic: 31193, rend_intergenic: 13746 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 37338, rend_intergenic: 32268 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 53990, rend_intergenic: 39936 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 90194, rend_intergenic: 83819 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 105994, rend_intergenic: 104120 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 118429, rend_intergenic: 116839 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 168152, rend_intergenic: 163585 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 180103, rend_intergenic: 178804 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 187539, rend_intergenic: 182355 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 192118, rend_intergenic: 190460 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 201826, rend_intergenic: 198584 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 204576, rend_intergenic: 203520 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 208830, rend_intergenic: 205478 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 23 predictions persist after filtering for low support