-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_717 -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: +)Couldn't classify 4279, 4770 Sorry, prediction snap_scaffold_717-snap.2-T1 fails validation. (ATG) GG 1557-1657 GT GGG (ATG) AG 4279-4770 GT AGG -recovered snap_scaffold_717-snap.2-T1, initial, 1557, 1657 add_exon() Sorry, snap_scaffold_717-snap.2-T1 4279-4770-initial-1 is invalid. -recovered snap_scaffold_717-snap.2-T1, initial, 4279, 4770 -recovered snap_scaffold_717-snap.2-T1, internal, 4279, 4770 Valid prediction for GlimmerHMM_glimmerT_62154-T1 Couldn't classify 176, 495 Couldn't classify 4836, 4854 Sorry, prediction GeneMark_model.108249_t fails validation. (GCC) AG 176-495 GT ACG (GAT) AG 548-571 GT AGG (GGA) AG 599-634 GT AGG (CGC) AG 1399-1524 GT CAG (GAT) AG 1563-1583 GT GGG (GGT) AG 1603-1623 GT GAG (GAT) AG 1650-1670 GT GGG (AGG) AG 1697-1714 GT GTG (GAT) AG 1738-1758 GT GGG (GGT) AG 1781-1795 GT GGG (GGT) AG 1823-1918 GT GGG (GGT) AG 1945-2004 GT GTG (GGT) AG 2031-2072 GT GGG (GGA) AG 2107-2115 GT GGG (GGT) AG 2136-2180 GT GTG (GGT) AG 2207-2233 GT GGG (GTC) AG 2257-2268 GT GTG (TCT) AG 2451-2480 GT ATG (GGG) AG 3829-4049 GT GGG (ATG) AG 4279-4294 GT GGG (AGA) AG 4317-4322 GT GGG (GAG) AG 4343-4351 GT GAG (GAG) AG 4379-4444 GT GAG (GAG) AG 4466-4495 GC AGG (AGG) AG 4529-4717 GT GAG (GAG) AG 4740-4790 GT GGG (GGA) AG 4836-4854 GT GGG -recovered GeneMark_model.108249_t, initial, 4279, 4294 -recovered GeneMark_model.108249_t, internal, 176, 495 -recovered GeneMark_model.108249_t, internal, 548, 571 -recovered GeneMark_model.108249_t, internal, 599, 634 -recovered GeneMark_model.108249_t, internal, 1399, 1524 -recovered GeneMark_model.108249_t, internal, 1563, 1583 -recovered GeneMark_model.108249_t, internal, 1603, 1623 -recovered GeneMark_model.108249_t, internal, 1650, 1670 -recovered GeneMark_model.108249_t, internal, 1697, 1714 -recovered GeneMark_model.108249_t, internal, 1738, 1758 -recovered GeneMark_model.108249_t, internal, 1781, 1795 -recovered GeneMark_model.108249_t, internal, 1823, 1918 -recovered GeneMark_model.108249_t, internal, 1945, 2004 -recovered GeneMark_model.108249_t, internal, 2031, 2072 -recovered GeneMark_model.108249_t, internal, 2107, 2115 -recovered GeneMark_model.108249_t, internal, 2136, 2180 -recovered GeneMark_model.108249_t, internal, 2207, 2233 -recovered GeneMark_model.108249_t, internal, 2257, 2268 -recovered GeneMark_model.108249_t, internal, 2451, 2480 -recovered GeneMark_model.108249_t, internal, 3829, 4049 -recovered GeneMark_model.108249_t, internal, 4279, 4294 -recovered GeneMark_model.108249_t, internal, 4317, 4322 -recovered GeneMark_model.108249_t, internal, 4343, 4351 -recovered GeneMark_model.108249_t, internal, 4379, 4444 -recovered GeneMark_model.108249_t, internal, 4466, 4495 -recovered GeneMark_model.108249_t, internal, 4529, 4717 -recovered GeneMark_model.108249_t, internal, 4740, 4790 -recovered GeneMark_model.108249_t, internal, 4836, 4854 Couldn't classify 166, 557 Sorry, prediction Augustus_model.g41313.t1 fails validation. (GCC) AG 166-557 GT AGG (GTG) AG 1074-1090 TG AGT -recovered Augustus_model.g41313.t1, terminal, 1074, 1090 -recovered Augustus_model.g41313.t1, internal, 166, 557 -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 1029, 1168 Sorry, prediction GlimmerHMM_glimmerT_62155-T1 fails validation. (TGG) AG 1029-1168 GT CGG (GGC) AG 2547-2602 GT TGG (CCC) AG 3331-3518 GG GAG -recovered GlimmerHMM_glimmerT_62155-T1, terminal, 3331, 3518 -recovered GlimmerHMM_glimmerT_62155-T1, internal, 1029, 1168 -recovered GlimmerHMM_glimmerT_62155-T1, internal, 2547, 2602 Couldn't classify 1029, 1168 Couldn't classify 4442, 4745 Sorry, prediction snap_scaffold_717-snap.1-T1 fails validation. (TGG) AG 1029-1168 GT CGG (GGC) AG 2547-2602 GT TGG (CCC) AG 3331-3508 GT AGG (GGA) AG 4442-4745 GT AGG add_exon() Sorry, snap_scaffold_717-snap.1-T1 3331-3508-terminal-3 is invalid. -recovered snap_scaffold_717-snap.1-T1, terminal, 3331, 3508 -recovered snap_scaffold_717-snap.1-T1, internal, 1029, 1168 -recovered snap_scaffold_717-snap.1-T1, internal, 2547, 2602 -recovered snap_scaffold_717-snap.1-T1, internal, 3331, 3508 -recovered snap_scaffold_717-snap.1-T1, internal, 4442, 4745 Couldn't classify 1029, 1168 Sorry, prediction Augustus_model.g41314.t1 fails validation. (TGG) AG 1029-1168 GT CGG (GGC) AG 2547-2602 GT TGG (CCC) AG 3331-3518 GG GAG -recovered Augustus_model.g41314.t1, terminal, 3331, 3518 -recovered Augustus_model.g41314.t1, internal, 1029, 1168 -recovered Augustus_model.g41314.t1, internal, 2547, 2602 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3837, rend_intergenic: 1557 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 4865 -exon list size: 83 building trellis 1.2 2.4 3.5 4.7 5.9 7.1 8.2 9.4 10.6 11.8 12.9 14.1 15.3 16.5 17.6 18.8 20.0 21.2 22.4 23.5 24.7 25.9 27.1 28.2 29.4 30.6 31.8 32.9 34.1 35.3 36.5 37.6 38.8 40.0 41.2 42.4 43.5 44.7 45.9 47.1 48.2 49.4 50.6 51.8 52.9 54.1 55.3 56.5 57.6 58.8 60.0 61.2 62.4 63.5 64.7 65.9 67.1 68.2 69.4 70.6 71.8 72.9 74.1 75.3 76.5 77.6 78.8 80.0 81.2 82.4 83.5 84.7 85.9 87.1 88.2 89.4 90.6 91.8 92.9 94.1 95.3 96.5 97.6 98.8 -found 2 predictions from path traversal Error with prediction: snap lend_intergenic: 3837, rend_intergenic: 1557 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. GOT 5prime partial gene. GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 1 predictions persist after filtering for low support