-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_19/scaffold_19_1-125447 -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_19-snap.27-T1 Couldn't classify 102153, 102620 Sorry, prediction pasa_asmbl_21176.p1 fails validation. (ATG) AA 102153-102620 CA TCC Valid prediction for GlimmerHMM_glimmerT_43431-T1 Valid prediction for snap_scaffold_19-snap.12-T1 Couldn't classify 30358, 30516 Sorry, prediction pasa_asmbl_21169.p1 fails validation. (CAC) TG 30358-30516 GT AGG (ACG) AG 30888-30997 GT TGG (GAT) AG 31077-31199 GT AGG (GGT) AG 31780-31936 AC AGA -recovered pasa_asmbl_21169.p1, terminal, 31780, 31936 -recovered pasa_asmbl_21169.p1, internal, 30888, 30997 -recovered pasa_asmbl_21169.p1, internal, 31077, 31199 Couldn't classify 102906, 103403 Sorry, prediction pasa_asmbl_21177.p1 fails validation. (GCA) CA 102906-103403 GC TGG Valid prediction for snap_scaffold_19-snap.21-T1 Valid prediction for snap_scaffold_19-snap.6-T1 Valid prediction for GlimmerHMM_glimmerT_43439-T1 Valid prediction for snap_scaffold_19-snap.24-T1 Valid prediction for Augustus_model.g28877.t1 Valid prediction for GlimmerHMM_glimmerT_43443-T1 Valid prediction for snap_scaffold_19-snap.7-T1 Valid prediction for snap_scaffold_19-snap.2-T1 Sorry, intron length (7) is less than minimum required (10) Sorry, intron length (7) is less than minimum required (10) Valid prediction for GlimmerHMM_glimmerT_43440-T1 Valid prediction for Augustus_model.g28883.t1 Valid prediction for Augustus_model.g28880.t1 Valid prediction for Augustus_model.g28879.t1 Valid prediction for GlimmerHMM_glimmerT_43427-T1 Valid prediction for snap_scaffold_19-snap.11-T1 Valid prediction for CodingQuarry_transcript_25564-T1 Valid prediction for snap_scaffold_19-snap.29-T1 Valid prediction for snap_scaffold_19-snap.15-T1 Valid prediction for snap_scaffold_19-snap.18-T1 Couldn't classify 98780, 98798 Sorry, prediction pasa_asmbl_21173.p1 fails validation. (ATG) CC 97351-97588 GT CGG (GGC) AG 97729-97784 GT AGG (CAA) AG 97873-97977 GT AGG (TGT) AG 98095-98157 GT ATG (AAC) AG 98242-98318 GT AGG (AAA) AG 98538-98630 GT GGG (GAG) AG 98780-98798 AG GCA -recovered pasa_asmbl_21173.p1, initial, 97351, 97588 add_exon() Sorry, pasa_asmbl_21173.p1 98242-98318-terminal-2 is invalid. -recovered pasa_asmbl_21173.p1, terminal, 98242, 98318 -recovered pasa_asmbl_21173.p1, internal, 97729, 97784 -recovered pasa_asmbl_21173.p1, internal, 97873, 97977 -recovered pasa_asmbl_21173.p1, internal, 98095, 98157 -recovered pasa_asmbl_21173.p1, internal, 98242, 98318 -recovered pasa_asmbl_21173.p1, internal, 98538, 98630 Valid prediction for Augustus_model.g28878.t1 Valid prediction for GlimmerHMM_glimmerT_43445-T1 Valid prediction for HiQ_model.g28884.t1 Valid prediction for snap_scaffold_19-snap.22-T1 Valid prediction for GlimmerHMM_glimmerT_43430-T1 Valid prediction for HiQ_model.g28874.t1 Valid prediction for Augustus_model.g28885.t1 Valid prediction for snap_scaffold_19-snap.14-T1 Valid prediction for GlimmerHMM_glimmerT_43437-T1 Valid prediction for snap_scaffold_19-snap.25-T1 Couldn't classify 98883, 98946 Sorry, prediction pasa_asmbl_21175.p1 fails validation. (CCA) CA 98883-98946 GT AGG (ACT) AG 99039-99179 GT CTG (CGC) AG 99469-99686 GT TGG (CTG) AG 99782-100018 CG AGC -recovered pasa_asmbl_21175.p1, terminal, 99782, 100018 -recovered pasa_asmbl_21175.p1, internal, 99039, 99179 -recovered pasa_asmbl_21175.p1, internal, 99469, 99686 Valid prediction for snap_scaffold_19-snap.5-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_43435-T1 Valid prediction for Augustus_model.g28886.t1 Valid prediction for Augustus_model.g28873.t1 Valid prediction for snap_scaffold_19-snap.23-T1 Couldn't classify 112545, 112707 Sorry, prediction pasa_asmbl_21977.p1 fails validation. (ATG) GA 109180-109575 GT TGG (GAA) AG 110443-110744 GT ACG (GAC) AG 111437-111532 GT AAG (GGA) AG 111714-111910 GT AGG (ATC) AG 112137-112221 GT AGG (GCA) AG 112545-112707 TG GCT -recovered pasa_asmbl_21977.p1, initial, 109180, 109575 -recovered pasa_asmbl_21977.p1, internal, 110443, 110744 -recovered pasa_asmbl_21977.p1, internal, 111437, 111532 -recovered pasa_asmbl_21977.p1, internal, 111714, 111910 -recovered pasa_asmbl_21977.p1, internal, 112137, 112221 Valid prediction for Augustus_model.g28876.t1 Valid prediction for snap_scaffold_19-snap.13-T1 Valid prediction for GlimmerHMM_glimmerT_43441-T1 Valid prediction for snap_scaffold_19-snap.10-T1 Valid prediction for snap_scaffold_19-snap.3-T1 Valid prediction for GlimmerHMM_glimmerT_43428-T1 Valid prediction for snap_scaffold_19-snap.28-T1 Valid prediction for GlimmerHMM_glimmerT_43432-T1 Valid prediction for GlimmerHMM_glimmerT_43446-T1 Valid prediction for GlimmerHMM_glimmerT_43438-T1 Valid prediction for GlimmerHMM_glimmerT_43436-T1 Valid prediction for snap_scaffold_19-snap.1-T1 Valid prediction for Augustus_model.g28872.t1 Valid prediction for pasa_asmbl_21981.p1 Valid prediction for Augustus_model.g28875.t1 Valid prediction for CodingQuarry_transcript_25565-T1 Valid prediction for snap_scaffold_19-snap.16-T1 Valid prediction for GlimmerHMM_glimmerT_43429-T1 Valid prediction for snap_scaffold_19-snap.30-T1 Valid prediction for CodingQuarry_transcript_25566-T1 Valid prediction for GlimmerHMM_glimmerT_43426-T1 Valid prediction for GlimmerHMM_glimmerT_43442-T1 Valid prediction for GlimmerHMM_glimmerT_43444-T1 Valid prediction for Augustus_model.g28881.t1 Valid prediction for HiQ_model.g28882.t1 Valid prediction for snap_scaffold_19-snap.8-T1 Valid prediction for snap_scaffold_19-snap.17-T1 Valid prediction for snap_scaffold_19-snap.9-T1 Sorry, intron length (7) is less than minimum required (10) Valid prediction for snap_scaffold_19-snap.19-T1 Valid prediction for snap_scaffold_19-snap.4-T1 Valid prediction for GlimmerHMM_glimmerT_43434-T1 Valid prediction for GlimmerHMM_glimmerT_43433-T1 Valid prediction for snap_scaffold_19-snap.20-T1 Valid prediction for snap_scaffold_19-snap.26-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 29411, rend_intergenic: 23283 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 36363, rend_intergenic: 32196 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 48683, rend_intergenic: 41267 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 56865, rend_intergenic: 55685 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 65076, rend_intergenic: 57424 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 72377, rend_intergenic: 70083 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 85684, rend_intergenic: 79081 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93415, rend_intergenic: 85790 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 107698, rend_intergenic: 103287 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 120487, rend_intergenic: 118409 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 125447 -exon list size: 245 building trellis 0.4 0.8 1.2 1.6 2.0 2.4 2.8 3.2 3.6 4.0 4.5 4.9 5.3 5.7 6.1 6.5 6.9 7.3 7.7 8.1 8.5 8.9 9.3 9.7 10.1 10.5 10.9 11.3 11.7 12.1 12.6 13.0 13.4 13.8 14.2 14.6 15.0 15.4 15.8 16.2 16.6 17.0 17.4 17.8 18.2 18.6 19.0 19.4 19.8 20.2 20.6 21.1 21.5 21.9 22.3 22.7 23.1 23.5 23.9 24.3 24.7 25.1 25.5 25.9 26.3 26.7 27.1 27.5 27.9 28.3 28.7 29.1 29.6 30.0 30.4 30.8 31.2 31.6 32.0 32.4 32.8 33.2 33.6 34.0 34.4 34.8 35.2 35.6 36.0 36.4 36.8 37.2 37.7 38.1 38.5 38.9 39.3 39.7 40.1 40.5 40.9 41.3 41.7 42.1 42.5 42.9 43.3 43.7 44.1 44.5 44.9 45.3 45.7 46.2 46.6 47.0 47.4 47.8 48.2 48.6 49.0 49.4 49.8 50.2 50.6 51.0 51.4 51.8 52.2 52.6 53.0 53.4 53.8 54.3 54.7 55.1 55.5 55.9 56.3 56.7 57.1 57.5 57.9 58.3 58.7 59.1 59.5 59.9 60.3 60.7 61.1 61.5 61.9 62.3 62.8 63.2 63.6 64.0 64.4 64.8 65.2 65.6 66.0 66.4 66.8 67.2 67.6 68.0 68.4 68.8 69.2 69.6 70.0 70.4 70.9 71.3 71.7 72.1 72.5 72.9 73.3 73.7 74.1 74.5 74.9 75.3 75.7 76.1 76.5 76.9 77.3 77.7 78.1 78.5 78.9 79.4 79.8 80.2 80.6 81.0 81.4 81.8 82.2 82.6 83.0 83.4 83.8 84.2 84.6 85.0 85.4 85.8 86.2 86.6 87.0 87.4 87.9 88.3 88.7 89.1 89.5 89.9 90.3 90.7 91.1 91.5 91.9 92.3 92.7 93.1 93.5 93.9 94.3 94.7 95.1 95.5 96.0 96.4 96.8 97.2 97.6 98.0 98.4 98.8 99.2 99.6 -found 25 predictions from path traversal Error with prediction: snap lend_intergenic: 29411, rend_intergenic: 23283 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 36363, rend_intergenic: 32196 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 48683, rend_intergenic: 41267 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 56865, rend_intergenic: 55685 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 65076, rend_intergenic: 57424 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 72377, rend_intergenic: 70083 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 85684, rend_intergenic: 79081 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93415, rend_intergenic: 85790 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 107698, rend_intergenic: 103287 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 120487, rend_intergenic: 118409 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 18 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 12493 -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 -building DP trellis -building trellis in range 1 - 12072 -exon list size: 2 building trellis 25.0 50.0 75.0 -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