-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_321 -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 1291, 1427 Sorry, prediction snap_scaffold_321-snap.1-T1 fails validation. (TAC) AG 1291-1427 GT AGG (CCT) AG 3336-3508 GA AGG -recovered snap_scaffold_321-snap.1-T1, terminal, 3336, 3508 -recovered snap_scaffold_321-snap.1-T1, internal, 1291, 1427 Couldn't classify 6493, 6576 Sorry, prediction snap_scaffold_321-snap.3-T1 fails validation. (ATG) GA 3774-3786 GT AGG (TTC) AG 3871-4134 GT GGG (GGG) AG 6493-6576 GT GGG -recovered snap_scaffold_321-snap.3-T1, initial, 3774, 3786 -recovered snap_scaffold_321-snap.3-T1, internal, 3871, 4134 -recovered snap_scaffold_321-snap.3-T1, internal, 6493, 6576 Valid prediction for GeneMark_model.107301_t -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 CodingQuarry_transcript_46412-T1 Couldn't classify 94, 180 Sorry, prediction GlimmerHMM_glimmerT_61693-T1 fails validation. (GGG) AG 94-180 GT AGG (CCT) AG 1135-1227 GT CGG (CCT) AG 3419-3475 GT CGG (GGG) AG 3859-3983 TC AAT add_exon() Sorry, GlimmerHMM_glimmerT_61693-T1 94-180-terminal-1 is invalid. -recovered GlimmerHMM_glimmerT_61693-T1, terminal, 94, 180 -recovered GlimmerHMM_glimmerT_61693-T1, terminal, 3859, 3983 -recovered GlimmerHMM_glimmerT_61693-T1, internal, 94, 180 -recovered GlimmerHMM_glimmerT_61693-T1, internal, 1135, 1227 -recovered GlimmerHMM_glimmerT_61693-T1, internal, 3419, 3475 Couldn't classify 6741, 6851 Sorry, prediction GeneMark_model.107300_t fails validation. (ATG) GC 5961-5990 GT AGG (CAG) AG 6741-6851 GT TGG -recovered GeneMark_model.107300_t, initial, 5961, 5990 -recovered GeneMark_model.107300_t, internal, 6741, 6851 Valid prediction for GlimmerHMM_glimmerT_61692-T1 Couldn't classify 3, 180 Sorry, prediction pasa_asmbl_40907.p1 fails validation. (TGT) TG 3-180 GT AGG (CCT) AG 1135-1227 GT CGG (CCT) AG 3419-3475 GT CGG (GGG) AG 3859-3921 GT AGG (GGT) AG 4745-4869 GT AGG (GCT) AG 5004-5054 GT AGG (GTG) AG 5943-5990 GT AGG (GTC) AG 6066-6143 CA AAC -recovered pasa_asmbl_40907.p1, terminal, 6066, 6143 -recovered pasa_asmbl_40907.p1, internal, 1135, 1227 -recovered pasa_asmbl_40907.p1, internal, 3419, 3475 -recovered pasa_asmbl_40907.p1, internal, 3859, 3921 -recovered pasa_asmbl_40907.p1, internal, 4745, 4869 -recovered pasa_asmbl_40907.p1, internal, 5004, 5054 -recovered pasa_asmbl_40907.p1, internal, 5943, 5990 Couldn't classify 94, 180 Sorry, prediction GeneMark_model.107302_t fails validation. (GGG) AG 94-180 GT AGG (CCT) AG 1135-1253 CC GAC add_exon() Sorry, GeneMark_model.107302_t 94-180-terminal-1 is invalid. -recovered GeneMark_model.107302_t, terminal, 94, 180 -recovered GeneMark_model.107302_t, terminal, 1135, 1253 -recovered GeneMark_model.107302_t, internal, 94, 180 Valid prediction for HiQ_model.g41010.t1 Couldn't classify 94, 180 Couldn't classify 6657, 6851 Sorry, prediction snap_scaffold_321-snap.2-T1 fails validation. (GGG) AG 94-180 GT AGG (CCT) AG 1135-1227 GT CGG (CCT) AG 3419-3475 GT CGG (GGG) AG 3859-3921 GT AGG (GGT) AG 4745-4869 GT AGG (GCT) AG 5004-5054 GT AGG (GTG) AG 5943-5990 GT AGG (GTT) AG 6657-6851 GT TGG add_exon() Sorry, snap_scaffold_321-snap.2-T1 94-180-terminal-1 is invalid. -recovered snap_scaffold_321-snap.2-T1, terminal, 94, 180 -recovered snap_scaffold_321-snap.2-T1, internal, 94, 180 -recovered snap_scaffold_321-snap.2-T1, internal, 1135, 1227 -recovered snap_scaffold_321-snap.2-T1, internal, 3419, 3475 -recovered snap_scaffold_321-snap.2-T1, internal, 3859, 3921 -recovered snap_scaffold_321-snap.2-T1, internal, 4745, 4869 -recovered snap_scaffold_321-snap.2-T1, internal, 5004, 5054 -recovered snap_scaffold_321-snap.2-T1, internal, 5943, 5990 -recovered snap_scaffold_321-snap.2-T1, internal, 6657, 6851 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3508, rend_intergenic: 1298 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 8055, rend_intergenic: 3774 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 8148 -exon list size: 60 building trellis 1.6 3.2 4.8 6.5 8.1 9.7 11.3 12.9 14.5 16.1 17.7 19.4 21.0 22.6 24.2 25.8 27.4 29.0 30.6 32.3 33.9 35.5 37.1 38.7 40.3 41.9 43.5 45.2 46.8 48.4 50.0 51.6 53.2 54.8 56.5 58.1 59.7 61.3 62.9 64.5 66.1 67.7 69.4 71.0 72.6 74.2 75.8 77.4 79.0 80.6 82.3 83.9 85.5 87.1 88.7 90.3 91.9 93.5 95.2 96.8 98.4 -found 1 predictions from path traversal Error with prediction: snap lend_intergenic: 3508, rend_intergenic: 1298 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 8055, rend_intergenic: 3774 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