-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_127 -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 GeneMark_model.106666_t Couldn't classify 8130, 8489 Sorry, prediction pasa_asmbl_9248.p1 fails validation. (AGC) GC 8130-8489 CG GAC Valid prediction for snap_scaffold_127-snap.2-T1 add_exon() Sorry, snap_scaffold_127-snap.2-T1 1718-1950-initial-1 is invalid. add_exon() Sorry, snap_scaffold_127-snap.2-T1 2361-2460-internal-3 is invalid. add_exon() Sorry, snap_scaffold_127-snap.2-T1 5011-5209-terminal-1 is invalid. Couldn't classify 10745, 11266 Sorry, prediction pasa_asmbl_9249.p1 fails validation. (CCG) CG 10745-11266 CG AGC Valid prediction for snap_scaffold_127-snap.5-T1 Valid prediction for Augustus_model.g40807.t1 Couldn't classify 13926, 13943 Sorry, prediction GeneMark_model.106669_t fails validation. (ATG) TG 12673-12735 GT AGG (AAG) AG 13139-13164 GT AGG (ACA) AG 13209-13275 GT GGG (GTA) AG 13572-13834 GT GGG (GAG) AG 13862-13891 GT GAG (GAG) AG 13926-13943 GT GAG -recovered GeneMark_model.106669_t, initial, 12673, 12735 -recovered GeneMark_model.106669_t, internal, 13139, 13164 -recovered GeneMark_model.106669_t, internal, 13209, 13275 -recovered GeneMark_model.106669_t, internal, 13572, 13834 -recovered GeneMark_model.106669_t, internal, 13862, 13891 -recovered GeneMark_model.106669_t, internal, 13926, 13943 Valid prediction for snap_scaffold_127-snap.7-T1 Valid prediction for GlimmerHMM_glimmerT_61344-T1 Valid prediction for GlimmerHMM_glimmerT_61346-T1 Valid prediction for GeneMark_model.106667_t Valid prediction for GeneMark_model.106665_t Valid prediction for Augustus_model.g40804.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 Augustus_model.g40806.t1 Couldn't classify 182, 448 Sorry, prediction snap_scaffold_127-snap.6-T1 fails validation. (GCG) AG 182-448 GT AGG (AGG) AG 1234-1274 GT CAG (ACC) AG 1471-1667 GT TTG (TCA) AG 1740-1972 GT CAG (GGG) AG 2219-2364 TC GAT -recovered snap_scaffold_127-snap.6-T1, terminal, 2219, 2364 -recovered snap_scaffold_127-snap.6-T1, internal, 182, 448 -recovered snap_scaffold_127-snap.6-T1, internal, 1234, 1274 -recovered snap_scaffold_127-snap.6-T1, internal, 1471, 1667 -recovered snap_scaffold_127-snap.6-T1, internal, 1740, 1972 Valid prediction for GeneMark_model.106668_t Valid prediction for GlimmerHMM_glimmerT_61345-T1 Valid prediction for GeneMark_model.106664_t Valid prediction for GlimmerHMM_glimmerT_61343-T1 Valid prediction for Augustus_model.g40805.t1 Couldn't classify 12627, 12881 Sorry, prediction snap_scaffold_127-snap.1-T1 fails validation. (ATG) AG 5985-6088 GT CGG (GCG) AG 8939-8956 GT GGG (AGA) AG 11512-11865 GT AGG (CTC) AG 12034-12192 GT AGG (AGG) AG 12627-12881 GT AGG -recovered snap_scaffold_127-snap.1-T1, initial, 5985, 6088 -recovered snap_scaffold_127-snap.1-T1, internal, 5985, 6088 -recovered snap_scaffold_127-snap.1-T1, internal, 8939, 8956 -recovered snap_scaffold_127-snap.1-T1, internal, 11512, 11865 -recovered snap_scaffold_127-snap.1-T1, internal, 12034, 12192 -recovered snap_scaffold_127-snap.1-T1, internal, 12627, 12881 Valid prediction for snap_scaffold_127-snap.3-T1 Couldn't classify 12902, 12910 Sorry, prediction GeneMark_model.106663_t fails validation. (ATG) TC 11498-11767 GT AGG (AGG) AG 12102-12160 GT CCG (AGG) AG 12627-12650 GT CAG (AAG) AG 12674-12685 GT GGG (AGA) AG 12711-12881 GT AGG (AGA) AG 12902-12910 GT AGG -recovered GeneMark_model.106663_t, initial, 11498, 11767 -recovered GeneMark_model.106663_t, internal, 12102, 12160 -recovered GeneMark_model.106663_t, internal, 12627, 12650 -recovered GeneMark_model.106663_t, internal, 12674, 12685 -recovered GeneMark_model.106663_t, internal, 12711, 12881 -recovered GeneMark_model.106663_t, internal, 12902, 12910 Valid prediction for Augustus_model.g40803.t1 Valid prediction for snap_scaffold_127-snap.4-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7971, rend_intergenic: 1718 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 13774, rend_intergenic: 12673 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 13955 -exon list size: 92 building trellis 1.1 2.1 3.2 4.3 5.3 6.4 7.4 8.5 9.6 10.6 11.7 12.8 13.8 14.9 16.0 17.0 18.1 19.1 20.2 21.3 22.3 23.4 24.5 25.5 26.6 27.7 28.7 29.8 30.9 31.9 33.0 34.0 35.1 36.2 37.2 38.3 39.4 40.4 41.5 42.6 43.6 44.7 45.7 46.8 47.9 48.9 50.0 51.1 52.1 53.2 54.3 55.3 56.4 57.4 58.5 59.6 60.6 61.7 62.8 63.8 64.9 66.0 67.0 68.1 69.1 70.2 71.3 72.3 73.4 74.5 75.5 76.6 77.7 78.7 79.8 80.9 81.9 83.0 84.0 85.1 86.2 87.2 88.3 89.4 90.4 91.5 92.6 93.6 94.7 95.7 96.8 97.9 98.9 -found 6 predictions from path traversal Error with prediction: snap lend_intergenic: 7971, rend_intergenic: 1718 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 13774, rend_intergenic: 12673 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 6 predictions persist after filtering for low support