-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_307 -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 8282, 8305 Sorry, prediction GeneMark_model.107256_t fails validation. (ATG) TC 7353-7355 GT TGG (GCT) AG 7528-7693 GT AGG (GGA) AG 8019-8124 GT CTG (AGA) AG 8198-8224 GT GAG (TCG) AG 8247-8258 GT AGG (AGA) AG 8282-8305 GT GAG -recovered GeneMark_model.107256_t, initial, 7353, 7355 -recovered GeneMark_model.107256_t, internal, 7528, 7693 -recovered GeneMark_model.107256_t, internal, 8019, 8124 -recovered GeneMark_model.107256_t, internal, 8198, 8224 -recovered GeneMark_model.107256_t, internal, 8247, 8258 -recovered GeneMark_model.107256_t, internal, 8282, 8305 Couldn't classify 27, 157 Couldn't classify 8019, 8180 Sorry, prediction snap_scaffold_307-snap.2-T1 fails validation. (CCC) AG 27-157 GT AAG (GCC) AG 486-542 GT GGG (GTG) AG 547-645 GT TGG (GGG) AG 3590-3841 GT AAG (CTC) AG 4231-4293 GT GGG (GCG) AG 4337-4455 GT CGG (AGG) AG 5445-5628 GT TCG (GCT) AG 7528-7693 GT AGG (GGA) AG 8019-8180 GT AGG -recovered snap_scaffold_307-snap.2-T1, internal, 27, 157 -recovered snap_scaffold_307-snap.2-T1, internal, 486, 542 -recovered snap_scaffold_307-snap.2-T1, internal, 547, 645 -recovered snap_scaffold_307-snap.2-T1, internal, 3590, 3841 -recovered snap_scaffold_307-snap.2-T1, internal, 4231, 4293 -recovered snap_scaffold_307-snap.2-T1, internal, 4337, 4455 -recovered snap_scaffold_307-snap.2-T1, internal, 5445, 5628 -recovered snap_scaffold_307-snap.2-T1, internal, 7528, 7693 -recovered snap_scaffold_307-snap.2-T1, internal, 8019, 8180 Sorry, intron length (3) is less than minimum required (10) Couldn't classify 8019, 8180 Sorry, prediction GlimmerHMM_glimmerT_61672-T1 fails validation. (ATG) TC 7353-7355 GT TGG (GCT) AG 7528-7693 GT AGG (GGA) AG 8019-8180 GT AGG -recovered GlimmerHMM_glimmerT_61672-T1, initial, 7353, 7355 -recovered GlimmerHMM_glimmerT_61672-T1, internal, 7528, 7693 -recovered GlimmerHMM_glimmerT_61672-T1, internal, 8019, 8180 Couldn't classify 7534, 7693 Couldn't classify 8019, 8179 Sorry, prediction pasa_asmbl_40873.p1 fails validation. (GCG) CA 7534-7693 GT AGG (GGA) AG 8019-8179 GG CAG Couldn't classify 8019, 8180 Sorry, prediction Augustus_model.g41002.t1 fails validation. (ATG) TC 7353-7355 GT TGG (GCT) AG 7528-7693 GT AGG (GGA) AG 8019-8180 GT AGG -recovered Augustus_model.g41002.t1, initial, 7353, 7355 -recovered Augustus_model.g41002.t1, internal, 7528, 7693 -recovered Augustus_model.g41002.t1, internal, 8019, 8180 -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 GlimmerHMM_glimmerT_61671-T1 Couldn't classify 8200, 8307 Sorry, prediction Augustus_model.g41000.t1 fails validation. (ATG) CG 7722-7965 GT AGG (GTG) AG 8200-8307 GT AGG -recovered Augustus_model.g41000.t1, initial, 7722, 7965 -recovered Augustus_model.g41000.t1, internal, 8200, 8307 Couldn't classify 8200, 8307 Sorry, prediction snap_scaffold_307-snap.1-T1 fails validation. (ATG) AG 3779-4076 GT AGG (GAG) AG 4518-4814 GT AGG (GCT) AG 7660-7965 GT AGG (GTG) AG 8200-8307 GT AGG -recovered snap_scaffold_307-snap.1-T1, initial, 3779, 4076 -recovered snap_scaffold_307-snap.1-T1, internal, 3779, 4076 -recovered snap_scaffold_307-snap.1-T1, internal, 4518, 4814 -recovered snap_scaffold_307-snap.1-T1, internal, 7660, 7965 -recovered snap_scaffold_307-snap.1-T1, internal, 8200, 8307 Couldn't classify 226, 301 Sorry, prediction snap_scaffold_307-snap.3-T1 fails validation. (CAC) AG 226-301 GT CTG (GGA) AG 566-763 GT AGG (GCC) AG 2819-2983 AG GAA -recovered snap_scaffold_307-snap.3-T1, terminal, 2819, 2983 -recovered snap_scaffold_307-snap.3-T1, internal, 226, 301 -recovered snap_scaffold_307-snap.3-T1, internal, 566, 763 Couldn't classify 8200, 8307 Sorry, prediction GeneMark_model.107255_t fails validation. (ATG) GG 2903-2913 GT CCG (AGA) AG 3655-3786 GT ACG (AAG) AG 3807-4061 GT GAG (GAG) AG 4085-4114 GT GAG (GCG) AG 4148-4219 GT AGG (GGA) AG 4241-4264 GT GAG (GGC) AG 4521-4565 GT CAG (GGG) AG 4600-4620 GT GGG (GGG) AG 4644-4698 GT CTG (TGC) AG 4719-4828 GT GAG (AGA) AG 7637-7739 GT AGG (AGC) AG 7764-7965 GT AGG (GTG) AG 8200-8307 GT AGG -recovered GeneMark_model.107255_t, initial, 2903, 2913 -recovered GeneMark_model.107255_t, internal, 3655, 3786 -recovered GeneMark_model.107255_t, internal, 3807, 4061 -recovered GeneMark_model.107255_t, internal, 4085, 4114 -recovered GeneMark_model.107255_t, internal, 4148, 4219 -recovered GeneMark_model.107255_t, internal, 4241, 4264 -recovered GeneMark_model.107255_t, internal, 4521, 4565 -recovered GeneMark_model.107255_t, internal, 4600, 4620 -recovered GeneMark_model.107255_t, internal, 4644, 4698 -recovered GeneMark_model.107255_t, internal, 4719, 4828 -recovered GeneMark_model.107255_t, internal, 7637, 7739 -recovered GeneMark_model.107255_t, internal, 7764, 7965 -recovered GeneMark_model.107255_t, internal, 8200, 8307 Valid prediction for Augustus_model.g41001.t1 Valid prediction for GlimmerHMM_glimmerT_61670-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4539, rend_intergenic: 27 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 8180, rend_intergenic: 5335 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 8317 -exon list size: 70 building trellis 1.4 2.8 4.2 5.6 6.9 8.3 9.7 11.1 12.5 13.9 15.3 16.7 18.1 19.4 20.8 22.2 23.6 25.0 26.4 27.8 29.2 30.6 31.9 33.3 34.7 36.1 37.5 38.9 40.3 41.7 43.1 44.4 45.8 47.2 48.6 50.0 51.4 52.8 54.2 55.6 56.9 58.3 59.7 61.1 62.5 63.9 65.3 66.7 68.1 69.4 70.8 72.2 73.6 75.0 76.4 77.8 79.2 80.6 81.9 83.3 84.7 86.1 87.5 88.9 90.3 91.7 93.1 94.4 95.8 97.2 98.6 -found 3 predictions from path traversal Error with prediction: snap lend_intergenic: 4539, rend_intergenic: 27 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 8180, rend_intergenic: 5335 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 3 predictions persist after filtering for low support