-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_4/scaffold_4_16966222-17121636 -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_4-snap.3497-T1 Valid prediction for snap_scaffold_4-snap.3472-T1 Valid prediction for GlimmerHMM_glimmerT_10941-T1 Couldn't classify 99365, 100150 Sorry, prediction pasa_asmbl_42029.p1 fails validation. (AGT) CC 99365-100150 GG AGG Valid prediction for snap_scaffold_4-snap.3488-T1 Couldn't classify 59982, 60123 Sorry, prediction pasa_asmbl_42020.p1 fails validation. (ATC) TC 59982-60123 GT AGG (TTC) AG 60372-60638 GT AGG (GTG) AG 60878-61113 GT AGG (ATT) AG 61870-62034 GC AGG (GAC) AG 63010-63208 GT AGG (CGC) AG 63689-63987 GT AGG (GAG) AG 64195-64356 GT GGG (GAT) AG 64852-64892 GT AAG (CTC) AG 65116-65273 GT GGG (CTC) AG 65421-65533 GT AGG (ACC) AG 65632-65926 GT AGG (ACG) AG 66141-66304 GT AGG (TCA) AG 66467-66608 GT AGG (ACA) AG 66723-66901 AC AAA -recovered pasa_asmbl_42020.p1, terminal, 66723, 66901 -recovered pasa_asmbl_42020.p1, internal, 60372, 60638 -recovered pasa_asmbl_42020.p1, internal, 60878, 61113 -recovered pasa_asmbl_42020.p1, internal, 61870, 62034 -recovered pasa_asmbl_42020.p1, internal, 63010, 63208 -recovered pasa_asmbl_42020.p1, internal, 63689, 63987 -recovered pasa_asmbl_42020.p1, internal, 64195, 64356 -recovered pasa_asmbl_42020.p1, internal, 64852, 64892 -recovered pasa_asmbl_42020.p1, internal, 65116, 65273 -recovered pasa_asmbl_42020.p1, internal, 65421, 65533 -recovered pasa_asmbl_42020.p1, internal, 65632, 65926 -recovered pasa_asmbl_42020.p1, internal, 66141, 66304 -recovered pasa_asmbl_42020.p1, internal, 66467, 66608 Valid prediction for snap_scaffold_4-snap.3483-T1 Valid prediction for Augustus_model.g7181.t1 Valid prediction for GlimmerHMM_glimmerT_10946-T1 Valid prediction for CodingQuarry_transcript_49310-T1 Valid prediction for CodingQuarry_transcript_49309-T1 Valid prediction for snap_scaffold_4-snap.3479-T1 Valid prediction for snap_scaffold_4-snap.3477-T1 Valid prediction for snap_scaffold_4-snap.3487-T1 Valid prediction for GlimmerHMM_glimmerT_10948-T1 Valid prediction for GlimmerHMM_glimmerT_10942-T1 Valid prediction for CodingQuarry_transcript_49308-T1 Valid prediction for Augustus_model.g7179.t1 Valid prediction for Augustus_model.g7183.t1 Valid prediction for HiQ_model.g7182.t1 Valid prediction for snap_scaffold_4-snap.3495-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for snap_scaffold_4-snap.3491-T1 Valid prediction for Augustus_model.g7180.t1 Valid prediction for snap_scaffold_4-snap.3490-T1 Valid prediction for snap_scaffold_4-snap.3466-T1 Couldn't classify 65750, 66304 Sorry, prediction pasa_asmbl_42026.p1 fails validation. (GTG) GG 65750-66304 GT AGG (TCA) AG 66467-66608 GT AGG (ACA) AG 66723-66901 AC AAA -recovered pasa_asmbl_42026.p1, terminal, 66723, 66901 -recovered pasa_asmbl_42026.p1, internal, 66467, 66608 Valid prediction for pasa_asmbl_42031.p1 Valid prediction for snap_scaffold_4-snap.3467-T1 Valid prediction for GlimmerHMM_glimmerT_10957-T1 Valid prediction for GlimmerHMM_glimmerT_10950-T1 Valid prediction for snap_scaffold_4-snap.3474-T1 Couldn't classify 153450, 153865 Sorry, prediction pasa_asmbl_42034.p1 fails validation. (ATG) CC 145489-145557 GT AGG (GTT) AG 146614-146772 GT AGG (GCT) AG 147049-147177 GT AGG (GGG) AG 148142-148262 GT TGG (CCT) AG 148751-148908 GT AGG (GAG) AG 150626-150706 GT AGG (AGT) AG 151288-151555 GT AGG (CTG) AG 152456-152620 GT AGG (GAG) AG 153028-153267 GT AGG (GCT) AG 153450-153865 AT GGA -recovered pasa_asmbl_42034.p1, initial, 145489, 145557 -recovered pasa_asmbl_42034.p1, internal, 146614, 146772 -recovered pasa_asmbl_42034.p1, internal, 147049, 147177 -recovered pasa_asmbl_42034.p1, internal, 148142, 148262 -recovered pasa_asmbl_42034.p1, internal, 148751, 148908 -recovered pasa_asmbl_42034.p1, internal, 150626, 150706 -recovered pasa_asmbl_42034.p1, internal, 151288, 151555 -recovered pasa_asmbl_42034.p1, internal, 152456, 152620 -recovered pasa_asmbl_42034.p1, internal, 153028, 153267 Valid prediction for CodingQuarry_transcript_49311-T1 Couldn't classify 95239, 95268 Couldn't classify 95460, 95828 Sorry, prediction pasa_asmbl_42028.p2 fails validation. (AAA) GC 95239-95268 GT AGG (GTT) AG 95460-95828 GC AGG -recovered pasa_asmbl_42028.p2, internal, 95460, 95828 Valid prediction for CodingQuarry_transcript_49304-T1 Valid prediction for snap_scaffold_4-snap.3485-T1 Valid prediction for GlimmerHMM_glimmerT_10943-T1 Valid prediction for snap_scaffold_4-snap.3468-T1 Valid prediction for GlimmerHMM_glimmerT_10947-T1 Valid prediction for GlimmerHMM_glimmerT_10935-T1 Valid prediction for GlimmerHMM_glimmerT_10951-T1 Valid prediction for snap_scaffold_4-snap.3471-T1 Valid prediction for GlimmerHMM_glimmerT_10949-T1 Valid prediction for Augustus_model.g7187.t1 Valid prediction for Augustus_model.g7184.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_10955-T1 Valid prediction for snap_scaffold_4-snap.3478-T1 Couldn't classify 112872, 112973 Sorry, prediction pasa_asmbl_43241.p1 fails validation. (CTG) AG 112872-112973 GT TGG (AAG) AG 113350-113553 GT AGG (GAA) AG 114019-114285 TA AGT -recovered pasa_asmbl_43241.p1, terminal, 114019, 114285 -recovered pasa_asmbl_43241.p1, internal, 112872, 112973 -recovered pasa_asmbl_43241.p1, internal, 113350, 113553 Valid prediction for snap_scaffold_4-snap.3482-T1 Sorry, intron length (8) is less than minimum required (10) Valid prediction for snap_scaffold_4-snap.3492-T1 Couldn't classify 109219, 109323 Couldn't classify 110704, 110761 Sorry, prediction pasa_asmbl_43516.p1 fails validation. (CCT) AG 109219-109323 GT AGG (AAA) AG 110155-110315 GT AGG (GCG) AG 110704-110761 CT GGC -recovered pasa_asmbl_43516.p1, internal, 109219, 109323 -recovered pasa_asmbl_43516.p1, internal, 110155, 110315 Valid prediction for GlimmerHMM_glimmerT_10939-T1 Valid prediction for Augustus_model.g7177.t1 Valid prediction for snap_scaffold_4-snap.3465-T1 Valid prediction for snap_scaffold_4-snap.3489-T1 Valid prediction for GlimmerHMM_glimmerT_10937-T1 Valid prediction for GlimmerHMM_glimmerT_10953-T1 Valid prediction for GlimmerHMM_glimmerT_10956-T1 Couldn't classify 149129, 149275 Couldn't classify 149834, 149983 Sorry, prediction pasa_asmbl_43656.p1 fails validation. (CTC) AT 149129-149275 GT TGG (GGC) AG 149834-149983 GT AAG -recovered pasa_asmbl_43656.p1, internal, 149834, 149983 Valid prediction for snap_scaffold_4-snap.3469-T1 Valid prediction for snap_scaffold_4-snap.3494-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for GlimmerHMM_glimmerT_10954-T1 Valid prediction for snap_scaffold_4-snap.3481-T1 Valid prediction for GlimmerHMM_glimmerT_10952-T1 Valid prediction for HiQ_model.g7186.t1 Valid prediction for CodingQuarry_transcript_49307-T1 Valid prediction for snap_scaffold_4-snap.3496-T1 Valid prediction for snap_scaffold_4-snap.3475-T1 Valid prediction for snap_scaffold_4-snap.3486-T1 Valid prediction for GlimmerHMM_glimmerT_10945-T1 Valid prediction for CodingQuarry_transcript_49305-T1 Valid prediction for pasa_asmbl_43250.p1 Valid prediction for snap_scaffold_4-snap.3473-T1 Valid prediction for Augustus_model.g7175.t1 Valid prediction for snap_scaffold_4-snap.3493-T1 Valid prediction for snap_scaffold_4-snap.3484-T1 Valid prediction for snap_scaffold_4-snap.3470-T1 Valid prediction for HiQ_model.g7178.t1 Valid prediction for Augustus_model.g7176.t1 Valid prediction for GlimmerHMM_glimmerT_10936-T1 Valid prediction for CodingQuarry_transcript_49303-T1 Valid prediction for GlimmerHMM_glimmerT_10938-T1 Valid prediction for GlimmerHMM_glimmerT_10944-T1 Valid prediction for GlimmerHMM_glimmerT_10940-T1 Valid prediction for HiQ_model.g7185.t1 Valid prediction for snap_scaffold_4-snap.3498-T1 Valid prediction for snap_scaffold_4-snap.3476-T1 Valid prediction for snap_scaffold_4-snap.3480-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18719, rend_intergenic: 2449 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 23776, rend_intergenic: 19816 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 31190, rend_intergenic: 28531 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 38344, rend_intergenic: 35889 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 42898, rend_intergenic: 41131 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 66901, rend_intergenic: 59673 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 86153, rend_intergenic: 68586 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 89231, rend_intergenic: 87600 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 91957, rend_intergenic: 90299 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 99198, rend_intergenic: 94463 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 103773, rend_intergenic: 102822 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 110351, rend_intergenic: 103773 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 124739, rend_intergenic: 113345 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 128615, rend_intergenic: 125287 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 133567, rend_intergenic: 131524 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 153934, rend_intergenic: 145641 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 155415 -exon list size: 322 building trellis 0.3 0.6 0.9 1.2 1.5 1.9 2.2 2.5 2.8 3.1 3.4 3.7 4.0 4.3 4.6 4.9 5.2 5.6 5.9 6.2 6.5 6.8 7.1 7.4 7.7 8.0 8.3 8.6 9.0 9.3 9.6 9.9 10.2 10.5 10.8 11.1 11.4 11.7 12.0 12.3 12.7 13.0 13.3 13.6 13.9 14.2 14.5 14.8 15.1 15.4 15.7 16.0 16.4 16.7 17.0 17.3 17.6 17.9 18.2 18.5 18.8 19.1 19.4 19.8 20.1 20.4 20.7 21.0 21.3 21.6 21.9 22.2 22.5 22.8 23.1 23.5 23.8 24.1 24.4 24.7 25.0 25.3 25.6 25.9 26.2 26.5 26.9 27.2 27.5 27.8 28.1 28.4 28.7 29.0 29.3 29.6 29.9 30.2 30.6 30.9 31.2 31.5 31.8 32.1 32.4 32.7 33.0 33.3 33.6 34.0 34.3 34.6 34.9 35.2 35.5 35.8 36.1 36.4 36.7 37.0 37.3 37.7 38.0 38.3 38.6 38.9 39.2 39.5 39.8 40.1 40.4 40.7 41.0 41.4 41.7 42.0 42.3 42.6 42.9 43.2 43.5 43.8 44.1 44.4 44.8 45.1 45.4 45.7 46.0 46.3 46.6 46.9 47.2 47.5 47.8 48.1 48.5 48.8 49.1 49.4 49.7 50.0 50.3 50.6 50.9 51.2 51.5 51.9 52.2 52.5 52.8 53.1 53.4 53.7 54.0 54.3 54.6 54.9 55.2 55.6 55.9 56.2 56.5 56.8 57.1 57.4 57.7 58.0 58.3 58.6 59.0 59.3 59.6 59.9 60.2 60.5 60.8 61.1 61.4 61.7 62.0 62.3 62.7 63.0 63.3 63.6 63.9 64.2 64.5 64.8 65.1 65.4 65.7 66.0 66.4 66.7 67.0 67.3 67.6 67.9 68.2 68.5 68.8 69.1 69.4 69.8 70.1 70.4 70.7 71.0 71.3 71.6 71.9 72.2 72.5 72.8 73.1 73.5 73.8 74.1 74.4 74.7 75.0 75.3 75.6 75.9 76.2 76.5 76.9 77.2 77.5 77.8 78.1 78.4 78.7 79.0 79.3 79.6 79.9 80.2 80.6 80.9 81.2 81.5 81.8 82.1 82.4 82.7 83.0 83.3 83.6 84.0 84.3 84.6 84.9 85.2 85.5 85.8 86.1 86.4 86.7 87.0 87.3 87.7 88.0 88.3 88.6 88.9 89.2 89.5 89.8 90.1 90.4 90.7 91.0 91.4 91.7 92.0 92.3 92.6 92.9 93.2 93.5 93.8 94.1 94.4 94.8 95.1 95.4 95.7 96.0 96.3 96.6 96.9 97.2 97.5 97.8 98.1 98.5 98.8 99.1 99.4 99.7 -found 23 predictions from path traversal Error with prediction: snap lend_intergenic: 18719, rend_intergenic: 2449 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 23776, rend_intergenic: 19816 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 31190, rend_intergenic: 28531 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 38344, rend_intergenic: 35889 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 42898, rend_intergenic: 41131 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 66901, rend_intergenic: 59673 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 86153, rend_intergenic: 68586 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 89231, rend_intergenic: 87600 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 91957, rend_intergenic: 90299 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 99198, rend_intergenic: 94463 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 103773, rend_intergenic: 102822 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 110351, rend_intergenic: 103773 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 124739, rend_intergenic: 113345 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 128615, rend_intergenic: 125287 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 133567, rend_intergenic: 131524 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 153934, rend_intergenic: 145641 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 15 predictions persist after filtering for low support