-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_464 -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 snap_scaffold_464-snap.2-T1 Valid prediction for Augustus_model.g41133.t1 Valid prediction for CodingQuarry_transcript_49353-T1 Couldn't classify 330, 664 Sorry, prediction GeneMark_model.107696_t fails validation. (TCT) AG 330-664 GT GGG (GAG) AG 928-951 GT GCG (GAG) AG 974-1039 GT GGG (GAG) AG 1061-1126 GT GGG (TGT) AG 1154-1207 GT GGG (GTT) AG 1317-1331 GT AGG (CCC) AG 1353-1365 TG GAT -recovered GeneMark_model.107696_t, terminal, 1353, 1365 -recovered GeneMark_model.107696_t, internal, 330, 664 -recovered GeneMark_model.107696_t, internal, 928, 951 -recovered GeneMark_model.107696_t, internal, 974, 1039 -recovered GeneMark_model.107696_t, internal, 1061, 1126 -recovered GeneMark_model.107696_t, internal, 1154, 1207 -recovered GeneMark_model.107696_t, internal, 1317, 1331 Valid prediction for Augustus_model.g41132.t1 Valid prediction for GlimmerHMM_glimmerT_61880-T1 Valid prediction for GeneMark_model.107697_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: -)Couldn't classify 354, 470 Sorry, prediction GeneMark_model.107698_t fails validation. (CTG) AG 354-470 GT AGG (GCT) AG 754-831 GT AGG (GCC) AG 966-1088 GT AGG (ATT) AG 1216-1322 GT TGG (GGC) AG 1675-1782 GT GTG (GAA) AG 1905-1962 GT AGG (GGG) AG 2315-2329 AG AAA -recovered GeneMark_model.107698_t, terminal, 2315, 2329 -recovered GeneMark_model.107698_t, internal, 354, 470 -recovered GeneMark_model.107698_t, internal, 754, 831 -recovered GeneMark_model.107698_t, internal, 966, 1088 -recovered GeneMark_model.107698_t, internal, 1216, 1322 -recovered GeneMark_model.107698_t, internal, 1675, 1782 -recovered GeneMark_model.107698_t, internal, 1905, 1962 Couldn't classify 6073, 6178 Sorry, prediction snap_scaffold_464-snap.1-T1 fails validation. (ATG) AG 4127-4133 GT TGG (GTT) AG 4522-4594 GT TGG (CAC) AG 6073-6178 GT GGG -recovered snap_scaffold_464-snap.1-T1, initial, 4127, 4133 -recovered snap_scaffold_464-snap.1-T1, internal, 4127, 4133 -recovered snap_scaffold_464-snap.1-T1, internal, 4522, 4594 -recovered snap_scaffold_464-snap.1-T1, internal, 6073, 6178 Couldn't classify 354, 470 Sorry, prediction snap_scaffold_464-snap.3-T1 fails validation. (CTG) AG 354-470 GT AGG (GCT) AG 754-831 GT AGG (GCC) AG 966-1088 GT AGG (ATT) AG 1216-1322 GT TGG (GGC) AG 1675-1756 GT AGG (GTC) AG 1879-1962 GT AGG (GTG) AG 2099-2181 GT TGG (GGG) AG 2315-2357 AG GAA -recovered snap_scaffold_464-snap.3-T1, terminal, 2315, 2357 -recovered snap_scaffold_464-snap.3-T1, internal, 354, 470 -recovered snap_scaffold_464-snap.3-T1, internal, 754, 831 -recovered snap_scaffold_464-snap.3-T1, internal, 966, 1088 -recovered snap_scaffold_464-snap.3-T1, internal, 1216, 1322 -recovered snap_scaffold_464-snap.3-T1, internal, 1675, 1756 -recovered snap_scaffold_464-snap.3-T1, internal, 1879, 1962 -recovered snap_scaffold_464-snap.3-T1, internal, 2099, 2181 Couldn't classify 354, 470 Sorry, prediction GlimmerHMM_glimmerT_61881-T1 fails validation. (CTG) AG 354-470 GT AGG (GCT) AG 754-831 GT AGG (GCC) AG 966-1088 GT AGG (ATT) AG 1216-1322 GT TGG (GGC) AG 1675-1756 GT AGG (GTC) AG 1879-1962 GT AGG (GTG) AG 2099-2181 GT TGG (GGG) AG 2315-2357 AG GAA -recovered GlimmerHMM_glimmerT_61881-T1, terminal, 2315, 2357 -recovered GlimmerHMM_glimmerT_61881-T1, internal, 354, 470 -recovered GlimmerHMM_glimmerT_61881-T1, internal, 754, 831 -recovered GlimmerHMM_glimmerT_61881-T1, internal, 966, 1088 -recovered GlimmerHMM_glimmerT_61881-T1, internal, 1216, 1322 -recovered GlimmerHMM_glimmerT_61881-T1, internal, 1675, 1756 -recovered GlimmerHMM_glimmerT_61881-T1, internal, 1879, 1962 -recovered GlimmerHMM_glimmerT_61881-T1, internal, 2099, 2181 Couldn't classify 354, 470 Sorry, prediction Augustus_model.g41134.t1 fails validation. (CTG) AG 354-470 GT AGG (GCT) AG 754-831 GT AGG (GCC) AG 966-1088 GT AGG (ATT) AG 1216-1322 GT TGG (GGC) AG 1675-1756 GT AGG (GTC) AG 1879-1962 GT AGG (GTG) AG 2099-2181 GT TGG (GGG) AG 2315-2357 AG GAA -recovered Augustus_model.g41134.t1, terminal, 2315, 2357 -recovered Augustus_model.g41134.t1, internal, 354, 470 -recovered Augustus_model.g41134.t1, internal, 754, 831 -recovered Augustus_model.g41134.t1, internal, 966, 1088 -recovered Augustus_model.g41134.t1, internal, 1216, 1322 -recovered Augustus_model.g41134.t1, internal, 1675, 1756 -recovered Augustus_model.g41134.t1, internal, 1879, 1962 -recovered Augustus_model.g41134.t1, internal, 2099, 2181 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2646, rend_intergenic: 1143 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 6772 -exon list size: 51 building trellis 1.9 3.8 5.7 7.5 9.4 11.3 13.2 15.1 17.0 18.9 20.8 22.6 24.5 26.4 28.3 30.2 32.1 34.0 35.8 37.7 39.6 41.5 43.4 45.3 47.2 49.1 50.9 52.8 54.7 56.6 58.5 60.4 62.3 64.2 66.0 67.9 69.8 71.7 73.6 75.5 77.4 79.2 81.1 83.0 84.9 86.8 88.7 90.6 92.5 94.3 96.2 98.1 -found 4 predictions from path traversal Error with prediction: snap lend_intergenic: 2646, rend_intergenic: 1143 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