-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_96 -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 16293, 16492 Sorry, prediction GeneMark_model.106535_t fails validation. (ATG) GT 14222-14229 GT GTG (AGA) AG 14315-14464 GT AAG (AGA) AG 14516-14608 GT GCG (ACT) AG 14683-14703 GT CGG (AGA) AG 16293-16492 GC CCG -recovered GeneMark_model.106535_t, initial, 14222, 14229 -recovered GeneMark_model.106535_t, internal, 14315, 14464 -recovered GeneMark_model.106535_t, internal, 14516, 14608 -recovered GeneMark_model.106535_t, internal, 14683, 14703 -recovered GeneMark_model.106535_t, internal, 16293, 16492 Valid prediction for snap_scaffold_96-snap.3-T1 Valid prediction for GeneMark_model.106534_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 Augustus_model.g40762.t1 add_exon() Sorry, Augustus_model.g40762.t1 246-314-initial-1 is invalid. add_exon() Sorry, Augustus_model.g40762.t1 1879-1967-terminal-1 is invalid. Couldn't classify 16255, 16273 Sorry, prediction GeneMark_model.106533_t fails validation. (ATG) AG 8661-8689 GT CTG (TGG) AG 8713-8743 GT AGG (ACT) AG 9453-9541 GT CAG (CAC) AG 9758-9772 GT GGG (GGC) AG 9823-9924 GT GAG (GGT) AG 9970-9981 GT GAG (GAA) AG 10011-10025 GC AGG (CGT) AG 10048-10062 GT GGG (TGA) AG 10083-10127 GT GGG (GTG) AG 10155-10304 GT AGG (AAA) AG 10914-11000 GT GAG (GAT) AG 11030-11077 GC GAG (AGG) AG 11105-11179 GT GTG (TAG) AG 12013-12039 GT GAG (AGA) AG 12067-12269 GT GAG (CCT) AG 12451-12463 GT TCG (GAG) AG 12619-12645 GT GAG (GCA) AG 12669-12707 GT GAG (GAG) AG 12730-12756 GT GGG (GGT) AG 12945-13040 GT GAG (AGA) AG 13291-13346 GT GTG (GTG) AG 13513-13636 GT AGG (AGA) AG 13687-13707 GT GAG (AGA) AG 15694-15828 GT GGG (ATG) AG 15867-15908 GT GAG (ATT) AG 15936-15968 GT ATG (GGG) AG 16010-16123 GT AGG (GGG) AG 16146-16166 GT GGG (GAG) AG 16188-16196 GT GGG (GAG) AG 16220-16231 GT GAG (AGC) AG 16255-16273 GT ACG -recovered GeneMark_model.106533_t, initial, 8661, 8689 add_exon() Sorry, GeneMark_model.106533_t 15867-15908-initial-1 is invalid. -recovered GeneMark_model.106533_t, initial, 15867, 15908 -recovered GeneMark_model.106533_t, terminal, 9823, 9924 -recovered GeneMark_model.106533_t, terminal, 9970, 9981 -recovered GeneMark_model.106533_t, internal, 8661, 8689 -recovered GeneMark_model.106533_t, internal, 8713, 8743 -recovered GeneMark_model.106533_t, internal, 9453, 9541 -recovered GeneMark_model.106533_t, internal, 9758, 9772 -recovered GeneMark_model.106533_t, internal, 9823, 9924 -recovered GeneMark_model.106533_t, internal, 9970, 9981 -recovered GeneMark_model.106533_t, internal, 10011, 10025 -recovered GeneMark_model.106533_t, internal, 10048, 10062 -recovered GeneMark_model.106533_t, internal, 10083, 10127 -recovered GeneMark_model.106533_t, internal, 10155, 10304 -recovered GeneMark_model.106533_t, internal, 10914, 11000 -recovered GeneMark_model.106533_t, internal, 11030, 11077 -recovered GeneMark_model.106533_t, internal, 11105, 11179 -recovered GeneMark_model.106533_t, internal, 12013, 12039 -recovered GeneMark_model.106533_t, internal, 12067, 12269 -recovered GeneMark_model.106533_t, internal, 12451, 12463 -recovered GeneMark_model.106533_t, internal, 12619, 12645 -recovered GeneMark_model.106533_t, internal, 12669, 12707 -recovered GeneMark_model.106533_t, internal, 12730, 12756 -recovered GeneMark_model.106533_t, internal, 12945, 13040 -recovered GeneMark_model.106533_t, internal, 13291, 13346 -recovered GeneMark_model.106533_t, internal, 13513, 13636 -recovered GeneMark_model.106533_t, internal, 13687, 13707 -recovered GeneMark_model.106533_t, internal, 15694, 15828 -recovered GeneMark_model.106533_t, internal, 15867, 15908 -recovered GeneMark_model.106533_t, internal, 15936, 15968 -recovered GeneMark_model.106533_t, internal, 16010, 16123 -recovered GeneMark_model.106533_t, internal, 16146, 16166 -recovered GeneMark_model.106533_t, internal, 16188, 16196 -recovered GeneMark_model.106533_t, internal, 16220, 16231 -recovered GeneMark_model.106533_t, internal, 16255, 16273 Couldn't classify 15992, 16123 Sorry, prediction snap_scaffold_96-snap.1-T1 fails validation. (ATG) AG 10117-10304 GT AGG (AAA) AG 10914-10978 GT CAG (GTG) AG 13513-13636 GT AGG (AAG) AG 15992-16123 GT AGG -recovered snap_scaffold_96-snap.1-T1, initial, 10117, 10304 -recovered snap_scaffold_96-snap.1-T1, internal, 10117, 10304 -recovered snap_scaffold_96-snap.1-T1, internal, 10914, 10978 -recovered snap_scaffold_96-snap.1-T1, internal, 13513, 13636 -recovered snap_scaffold_96-snap.1-T1, internal, 15992, 16123 Valid prediction for snap_scaffold_96-snap.2-T1 add_exon() Sorry, snap_scaffold_96-snap.2-T1 246-314-initial-1 is invalid. add_exon() Sorry, snap_scaffold_96-snap.2-T1 2097-2192-internal-1 is invalid. add_exon() Sorry, snap_scaffold_96-snap.2-T1 7943-8017-internal-1 is invalid. add_exon() Sorry, snap_scaffold_96-snap.2-T1 8034-8101-internal-1 is invalid. add_exon() Sorry, snap_scaffold_96-snap.2-T1 9268-9334-internal-3 is invalid. add_exon() Sorry, snap_scaffold_96-snap.2-T1 9410-9924-terminal-1 is invalid. Valid prediction for GlimmerHMM_glimmerT_61274-T1 add_exon() Sorry, GlimmerHMM_glimmerT_61274-T1 246-314-initial-1 is invalid. add_exon() Sorry, GlimmerHMM_glimmerT_61274-T1 2097-2200-internal-1 is invalid. Valid prediction for Augustus_model.g40761.t1 Valid prediction for GlimmerHMM_glimmerT_61273-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 16267, rend_intergenic: 7932 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 16512 -exon list size: 97 building trellis 1.0 2.0 3.0 4.0 5.1 6.1 7.1 8.1 9.1 10.1 11.1 12.1 13.1 14.1 15.2 16.2 17.2 18.2 19.2 20.2 21.2 22.2 23.2 24.2 25.3 26.3 27.3 28.3 29.3 30.3 31.3 32.3 33.3 34.3 35.4 36.4 37.4 38.4 39.4 40.4 41.4 42.4 43.4 44.4 45.5 46.5 47.5 48.5 49.5 50.5 51.5 52.5 53.5 54.5 55.6 56.6 57.6 58.6 59.6 60.6 61.6 62.6 63.6 64.6 65.7 66.7 67.7 68.7 69.7 70.7 71.7 72.7 73.7 74.7 75.8 76.8 77.8 78.8 79.8 80.8 81.8 82.8 83.8 84.8 85.9 86.9 87.9 88.9 89.9 90.9 91.9 92.9 93.9 94.9 96.0 97.0 98.0 99.0 -found 4 predictions from path traversal Error with prediction: snap lend_intergenic: 16267, rend_intergenic: 7932 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 2 predictions persist after filtering for low support