-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_126 -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 246, 354 Sorry, prediction pasa_asmbl_9275.p1 fails validation. (AGG) GC 246-354 GT TGG (GAG) AG 1414-1431 GT TGG (AGG) AG 2188-2214 GT AGG (GGA) AG 2305-2484 GT AGG (AGT) AG 3318-3452 GT AGG (ACG) AG 5590-5741 GA AAG add_exon() Sorry, pasa_asmbl_9275.p1 2305-2484-terminal-1 is invalid. -recovered pasa_asmbl_9275.p1, terminal, 2305, 2484 -recovered pasa_asmbl_9275.p1, terminal, 5590, 5741 -recovered pasa_asmbl_9275.p1, internal, 1414, 1431 -recovered pasa_asmbl_9275.p1, internal, 2188, 2214 -recovered pasa_asmbl_9275.p1, internal, 2305, 2484 -recovered pasa_asmbl_9275.p1, internal, 3318, 3452 Valid prediction for GlimmerHMM_glimmerT_59844-T1 Couldn't classify 277, 354 Sorry, prediction snap_scaffold_126-snap.1-T1 fails validation. (TCT) AG 277-354 GT TGG (GAT) AG 1505-1942 GT CAG (GAG) AG 2128-2214 GT AGG (GGA) AG 2305-2484 GT AGG (AGT) AG 3318-3463 CC GAC add_exon() Sorry, snap_scaffold_126-snap.1-T1 2305-2484-terminal-1 is invalid. -recovered snap_scaffold_126-snap.1-T1, terminal, 2305, 2484 -recovered snap_scaffold_126-snap.1-T1, terminal, 3318, 3463 -recovered snap_scaffold_126-snap.1-T1, internal, 277, 354 -recovered snap_scaffold_126-snap.1-T1, internal, 1505, 1942 -recovered snap_scaffold_126-snap.1-T1, internal, 2128, 2214 -recovered snap_scaffold_126-snap.1-T1, internal, 2305, 2484 Couldn't classify 8709, 8818 Sorry, prediction snap_scaffold_126-snap.2-T1 fails validation. (ATG) AA 6637-6663 GT TAG (AAC) AG 7105-7514 GT AGG (ACG) AG 7525-7804 GT GGG (GGA) AG 7897-8034 GT CGG (AGG) AG 8119-8203 GT GGG (TCT) AG 8709-8818 GT TGG -recovered snap_scaffold_126-snap.2-T1, initial, 6637, 6663 -recovered snap_scaffold_126-snap.2-T1, internal, 7105, 7514 -recovered snap_scaffold_126-snap.2-T1, internal, 7525, 7804 -recovered snap_scaffold_126-snap.2-T1, internal, 7897, 8034 -recovered snap_scaffold_126-snap.2-T1, internal, 8119, 8203 -recovered snap_scaffold_126-snap.2-T1, internal, 8709, 8818 Sorry, intron length (9) is less than minimum required (10) Couldn't classify 248, 354 Sorry, prediction Augustus_model.g39645.t1 fails validation. (GTA) AG 248-354 GT TGG (GAG) AG 1414-1431 GT TGG (AGG) AG 2188-2214 GT AGG (GGA) AG 2305-2484 GT AGG (AGT) AG 3318-3452 GT AGG (ACG) AG 5590-5741 GA AAG add_exon() Sorry, Augustus_model.g39645.t1 2305-2484-terminal-1 is invalid. -recovered Augustus_model.g39645.t1, terminal, 2305, 2484 -recovered Augustus_model.g39645.t1, terminal, 5590, 5741 -recovered Augustus_model.g39645.t1, internal, 248, 354 -recovered Augustus_model.g39645.t1, internal, 1414, 1431 -recovered Augustus_model.g39645.t1, internal, 2188, 2214 -recovered Augustus_model.g39645.t1, internal, 2305, 2484 -recovered Augustus_model.g39645.t1, internal, 3318, 3452 Valid prediction for GlimmerHMM_glimmerT_59845-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: -)Couldn't classify 1113, 1204 Sorry, prediction Augustus_model.g39646.t1 fails validation. (GTC) AG 1113-1204 GT AGG (AAG) AG 1898-2044 GT ACG (GAC) AG 5365-5465 GT AGG (GAA) AG 5833-7063 GC GAG -recovered Augustus_model.g39646.t1, terminal, 5833, 7063 -recovered Augustus_model.g39646.t1, internal, 1113, 1204 -recovered Augustus_model.g39646.t1, internal, 1898, 2044 -recovered Augustus_model.g39646.t1, internal, 5365, 5465 -recovered Augustus_model.g39646.t1, internal, 5833, 7063 Couldn't classify 1113, 1204 Sorry, prediction GlimmerHMM_glimmerT_59846-T1 fails validation. (GTC) AG 1113-1204 GT AGG (AAG) AG 1898-2044 GT ACG (GAC) AG 5365-5465 GT AGG (GAA) AG 5833-7063 GC GAG -recovered GlimmerHMM_glimmerT_59846-T1, terminal, 5833, 7063 -recovered GlimmerHMM_glimmerT_59846-T1, internal, 1113, 1204 -recovered GlimmerHMM_glimmerT_59846-T1, internal, 1898, 2044 -recovered GlimmerHMM_glimmerT_59846-T1, internal, 5365, 5465 -recovered GlimmerHMM_glimmerT_59846-T1, internal, 5833, 7063 Couldn't classify 1113, 1204 Sorry, prediction snap_scaffold_126-snap.3-T1 fails validation. (GTC) AG 1113-1204 GT AGG (AAG) AG 1898-2044 GT ACG (GTG) AG 3828-3869 GT AGG (GAC) AG 5365-5465 GT AGG (GAA) AG 5833-7063 GC GAG -recovered snap_scaffold_126-snap.3-T1, terminal, 5833, 7063 -recovered snap_scaffold_126-snap.3-T1, internal, 1113, 1204 -recovered snap_scaffold_126-snap.3-T1, internal, 1898, 2044 -recovered snap_scaffold_126-snap.3-T1, internal, 3828, 3869 -recovered snap_scaffold_126-snap.3-T1, internal, 5365, 5465 -recovered snap_scaffold_126-snap.3-T1, internal, 5833, 7063 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8818, rend_intergenic: 7117 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 14179 -exon list size: 41 building trellis 2.3 4.7 7.0 9.3 11.6 14.0 16.3 18.6 20.9 23.3 25.6 27.9 30.2 32.6 34.9 37.2 39.5 41.9 44.2 46.5 48.8 51.2 53.5 55.8 58.1 60.5 62.8 65.1 67.4 69.8 72.1 74.4 76.7 79.1 81.4 83.7 86.0 88.4 90.7 93.0 95.3 97.7 -found 2 predictions from path traversal Error with prediction: snap lend_intergenic: 8818, rend_intergenic: 7117 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 2 predictions persist after filtering for low support