-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_229 -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.107004_t Couldn't classify 258, 327 Sorry, prediction snap_scaffold_229-snap.1-T1 fails validation. (TTG) AG 258-327 GT AGG (CCC) AG 2063-2173 GT CAG (CGC) AG 3378-3448 GT TGG (AAG) AG 3749-3824 GT AGG (CTC) AG 5338-5371 AC GAA -recovered snap_scaffold_229-snap.1-T1, terminal, 5338, 5371 -recovered snap_scaffold_229-snap.1-T1, internal, 258, 327 -recovered snap_scaffold_229-snap.1-T1, internal, 2063, 2173 -recovered snap_scaffold_229-snap.1-T1, internal, 3378, 3448 -recovered snap_scaffold_229-snap.1-T1, internal, 3749, 3824 -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: -)Couldn't classify 9094, 9118 Sorry, prediction GeneMark_model.107003_t fails validation. (ATG) TG 7762-7844 GT AGG (GCG) AG 7868-7922 GT TGG (GTG) AG 8055-8104 GT TGG (GGG) AG 8281-8406 GT GAG (ACA) AG 8428-8493 GT GAG (GAA) AG 9000-9055 GT AGG (AGA) AG 9094-9118 GT GGG -recovered GeneMark_model.107003_t, initial, 7762, 7844 -recovered GeneMark_model.107003_t, internal, 7868, 7922 -recovered GeneMark_model.107003_t, internal, 8055, 8104 -recovered GeneMark_model.107003_t, internal, 8281, 8406 -recovered GeneMark_model.107003_t, internal, 8428, 8493 -recovered GeneMark_model.107003_t, internal, 9000, 9055 -recovered GeneMark_model.107003_t, internal, 9094, 9118 Valid prediction for Augustus_model.g40927.t1 Valid prediction for snap_scaffold_229-snap.3-T1 Couldn't classify 2241, 2320 Sorry, prediction GeneMark_model.107005_t fails validation. (GGC) AG 2241-2320 GT GCG (ACC) AG 2745-2821 GT GAG (GAA) AG 4032-4169 GT GGG (GAG) AG 4206-4436 GT GGG (GGA) AG 4459-4572 GT GAG (CAG) AG 4629-4655 GT GAG (AGA) AG 4680-4778 GT GCG (AGC) AG 4826-4837 GT GAG (GAG) AG 4949-5050 GC AGG (AGG) AG 5076-5108 GT AGG (AAA) AG 5133-5198 GT GAG (AAA) AG 5222-5395 GT GGG (GGC) AG 5528-5665 GT GGG (GCT) AG 5832-5859 GT AGG (GCG) AG 5937-5991 GT CAG (CTG) AG 6140-6270 GT GGG (GGG) AG 6418-6491 GT ACG (GCA) AG 7000-7038 GT GGG (AAG) AG 7067-7083 GT GGG (GAC) AG 7180-7292 TC AAT -recovered GeneMark_model.107005_t, terminal, 7180, 7292 -recovered GeneMark_model.107005_t, internal, 2241, 2320 -recovered GeneMark_model.107005_t, internal, 2745, 2821 -recovered GeneMark_model.107005_t, internal, 4032, 4169 -recovered GeneMark_model.107005_t, internal, 4206, 4436 -recovered GeneMark_model.107005_t, internal, 4459, 4572 -recovered GeneMark_model.107005_t, internal, 4629, 4655 -recovered GeneMark_model.107005_t, internal, 4680, 4778 -recovered GeneMark_model.107005_t, internal, 4826, 4837 -recovered GeneMark_model.107005_t, internal, 4949, 5050 -recovered GeneMark_model.107005_t, internal, 5076, 5108 -recovered GeneMark_model.107005_t, internal, 5133, 5198 -recovered GeneMark_model.107005_t, internal, 5222, 5395 -recovered GeneMark_model.107005_t, internal, 5528, 5665 -recovered GeneMark_model.107005_t, internal, 5832, 5859 -recovered GeneMark_model.107005_t, internal, 5937, 5991 -recovered GeneMark_model.107005_t, internal, 6140, 6270 -recovered GeneMark_model.107005_t, internal, 6418, 6491 -recovered GeneMark_model.107005_t, internal, 7000, 7038 -recovered GeneMark_model.107005_t, internal, 7067, 7083 Couldn't classify 7180, 7288 Sorry, prediction snap_scaffold_229-snap.2-T1 fails validation. (ATG) TC 3992-4572 GT GAG (ACA) AG 4604-4837 GT GAG (GGC) AG 5528-5616 GT AGG (GTG) AG 5860-5991 GT CAG (CTG) AG 6140-6270 GT GGG (GGG) AG 6418-6456 GT GGG (ATA) AG 6930-7038 GT GGG (GAC) AG 7180-7288 GT CAG -recovered snap_scaffold_229-snap.2-T1, initial, 3992, 4572 -recovered snap_scaffold_229-snap.2-T1, internal, 4604, 4837 -recovered snap_scaffold_229-snap.2-T1, internal, 5528, 5616 -recovered snap_scaffold_229-snap.2-T1, internal, 5860, 5991 -recovered snap_scaffold_229-snap.2-T1, internal, 6140, 6270 -recovered snap_scaffold_229-snap.2-T1, internal, 6418, 6456 -recovered snap_scaffold_229-snap.2-T1, internal, 6930, 7038 -recovered snap_scaffold_229-snap.2-T1, internal, 7180, 7288 Couldn't classify 5528, 5616 Sorry, prediction GlimmerHMM_glimmerT_61540-T1 fails validation. (GGC) AG 5528-5616 GT AGG (GTG) AG 5860-5991 GT CAG (CTG) AG 6140-6270 GT GGG (GAC) AG 7180-7244 GT AGG (TCA) AG 8893-9100 AA GAA -recovered GlimmerHMM_glimmerT_61540-T1, terminal, 8893, 9100 -recovered GlimmerHMM_glimmerT_61540-T1, internal, 5528, 5616 -recovered GlimmerHMM_glimmerT_61540-T1, internal, 5860, 5991 -recovered GlimmerHMM_glimmerT_61540-T1, internal, 6140, 6270 -recovered GlimmerHMM_glimmerT_61540-T1, internal, 7180, 7244 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5371, rend_intergenic: 2050 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 9337 -exon list size: 89 building trellis 1.1 2.2 3.3 4.4 5.5 6.6 7.7 8.8 9.9 11.0 12.1 13.2 14.3 15.4 16.5 17.6 18.7 19.8 20.9 22.0 23.1 24.2 25.3 26.4 27.5 28.6 29.7 30.8 31.9 33.0 34.1 35.2 36.3 37.4 38.5 39.6 40.7 41.8 42.9 44.0 45.1 46.2 47.3 48.4 49.5 50.5 51.6 52.7 53.8 54.9 56.0 57.1 58.2 59.3 60.4 61.5 62.6 63.7 64.8 65.9 67.0 68.1 69.2 70.3 71.4 72.5 73.6 74.7 75.8 76.9 78.0 79.1 80.2 81.3 82.4 83.5 84.6 85.7 86.8 87.9 89.0 90.1 91.2 92.3 93.4 94.5 95.6 96.7 97.8 98.9 -found 3 predictions from path traversal Error with prediction: snap lend_intergenic: 5371, rend_intergenic: 2050 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 1 predictions persist after filtering for low support