-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_565 -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 5658, 5814 Sorry, prediction HiQ_model.g41208.t1 fails validation. (ATG) AT 657-742 GT GGG (GTA) AG 1445-1577 GT AGG (GCC) AG 1812-1948 GT CTG (CTA) AG 2289-2416 GT AGG (GAA) AG 4522-4579 GT AAG (CTG) AG 5658-5814 AG -recovered HiQ_model.g41208.t1, initial, 657, 742 -recovered HiQ_model.g41208.t1, internal, 1445, 1577 -recovered HiQ_model.g41208.t1, internal, 1812, 1948 -recovered HiQ_model.g41208.t1, internal, 2289, 2416 -recovered HiQ_model.g41208.t1, internal, 4522, 4579 Valid prediction for GeneMark_model.107943_t Couldn't classify 5658, 5801 Sorry, prediction snap_scaffold_565-snap.3-T1 fails validation. (ATG) CC 2762-2777 GT CTG (GTG) AG 3114-3224 GT GGG (GAA) AG 4522-4675 GT GAG (CTG) AG 5658-5801 GT ATG -recovered snap_scaffold_565-snap.3-T1, initial, 2762, 2777 -recovered snap_scaffold_565-snap.3-T1, internal, 3114, 3224 -recovered snap_scaffold_565-snap.3-T1, internal, 4522, 4675 -recovered snap_scaffold_565-snap.3-T1, internal, 5658, 5801 Valid prediction for GeneMark_model.107942_t Couldn't classify 5658, 5814 Sorry, prediction GlimmerHMM_glimmerT_61996-T1 fails validation. (ATG) AT 657-742 GT GGG (GTA) AG 1445-1577 GT AGG (GCC) AG 1812-1948 GT CTG (CTA) AG 2289-2416 GT AGG (GAA) AG 4522-4579 GT AAG (CTG) AG 5658-5814 AG -recovered GlimmerHMM_glimmerT_61996-T1, initial, 657, 742 -recovered GlimmerHMM_glimmerT_61996-T1, internal, 1445, 1577 -recovered GlimmerHMM_glimmerT_61996-T1, internal, 1812, 1948 -recovered GlimmerHMM_glimmerT_61996-T1, internal, 2289, 2416 -recovered GlimmerHMM_glimmerT_61996-T1, internal, 4522, 4579 Couldn't classify 654, 742 Couldn't classify 5658, 5814 Sorry, prediction pasa_asmbl_46531.p1 fails validation. (TAT) CG 654-742 GT GGG (GTA) AG 1445-1577 GT AGG (GCC) AG 1812-1948 GT CTG (CTA) AG 2289-2416 GT AGG (GAA) AG 4522-4579 GT AAG (CTG) AG 5658-5814 AG -recovered pasa_asmbl_46531.p1, internal, 1445, 1577 -recovered pasa_asmbl_46531.p1, internal, 1812, 1948 -recovered pasa_asmbl_46531.p1, internal, 2289, 2416 -recovered pasa_asmbl_46531.p1, internal, 4522, 4579 Couldn't classify 1445, 1577 Sorry, prediction snap_scaffold_565-snap.1-T1 fails validation. (GTA) AG 1445-1577 GT AGG (GCC) AG 1812-1948 GT CTG (CTA) AG 2289-2568 CC GAC -recovered snap_scaffold_565-snap.1-T1, terminal, 2289, 2568 -recovered snap_scaffold_565-snap.1-T1, internal, 1445, 1577 -recovered snap_scaffold_565-snap.1-T1, internal, 1812, 1948 -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 49, 197 Couldn't classify 3279, 3380 Sorry, prediction snap_scaffold_565-snap.2-T1 fails validation. (GTC) AG 49-197 GT GGG (CAT) AG 1212-1328 GT TGG (CAC) AG 2697-2856 GT AGG (TGG) AG 3279-3380 GT ATG -recovered snap_scaffold_565-snap.2-T1, internal, 49, 197 -recovered snap_scaffold_565-snap.2-T1, internal, 1212, 1328 -recovered snap_scaffold_565-snap.2-T1, internal, 2697, 2856 -recovered snap_scaffold_565-snap.2-T1, internal, 3279, 3380 Couldn't classify 41, 138 Sorry, prediction GeneMark_model.107944_t fails validation. (CCA) AG 41-138 GT GGG (GGG) AG 177-197 GT GGG (AGG) AG 222-242 GT GTG (GAA) AG 274-315 GT GTG (AAG) AG 340-345 GT AGG (GAG) AG 370-405 GT AGG (GAA) AG 426-437 GT AGG (GAG) AG 462-501 TT GAT -recovered GeneMark_model.107944_t, terminal, 462, 501 -recovered GeneMark_model.107944_t, internal, 41, 138 -recovered GeneMark_model.107944_t, internal, 177, 197 -recovered GeneMark_model.107944_t, internal, 222, 242 -recovered GeneMark_model.107944_t, internal, 274, 315 -recovered GeneMark_model.107944_t, internal, 340, 345 -recovered GeneMark_model.107944_t, internal, 370, 405 -recovered GeneMark_model.107944_t, internal, 426, 437 Couldn't classify 5736, 5744 Sorry, prediction GeneMark_model.107941_t fails validation. (ATG) AG 3888-3922 GT CCG (GCA) AG 4013-4084 GT AGG (AAA) AG 4117-4143 GT GGG (AGA) AG 4258-4330 GT CTG (AAG) AG 4365-4393 GT AGG (AGA) AG 4417-4428 GT AGG (AGG) AG 4454-4480 GT AGG (AGA) AG 4511-4522 GT AGG (GGA) AG 4548-4565 GT AGG (GAA) AG 4595-4687 GT ATG (GGA) AG 5467-5664 GT GAG (AAA) AG 5688-5714 GT GAG (GAC) AG 5736-5744 GT CAG -recovered GeneMark_model.107941_t, initial, 3888, 3922 -recovered GeneMark_model.107941_t, internal, 3888, 3922 -recovered GeneMark_model.107941_t, internal, 4013, 4084 -recovered GeneMark_model.107941_t, internal, 4117, 4143 -recovered GeneMark_model.107941_t, internal, 4258, 4330 -recovered GeneMark_model.107941_t, internal, 4365, 4393 -recovered GeneMark_model.107941_t, internal, 4417, 4428 -recovered GeneMark_model.107941_t, internal, 4454, 4480 -recovered GeneMark_model.107941_t, internal, 4511, 4522 -recovered GeneMark_model.107941_t, internal, 4548, 4565 -recovered GeneMark_model.107941_t, internal, 4595, 4687 -recovered GeneMark_model.107941_t, internal, 5467, 5664 -recovered GeneMark_model.107941_t, internal, 5688, 5714 -recovered GeneMark_model.107941_t, internal, 5736, 5744 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2568, rend_intergenic: 2435 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 5766, rend_intergenic: 2762 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 5814 -exon list size: 78 building trellis 1.2 2.5 3.8 5.0 6.2 7.5 8.8 10.0 11.2 12.5 13.8 15.0 16.2 17.5 18.8 20.0 21.2 22.5 23.8 25.0 26.2 27.5 28.7 30.0 31.2 32.5 33.8 35.0 36.2 37.5 38.8 40.0 41.2 42.5 43.8 45.0 46.2 47.5 48.8 50.0 51.2 52.5 53.8 55.0 56.2 57.5 58.8 60.0 61.3 62.5 63.7 65.0 66.2 67.5 68.8 70.0 71.2 72.5 73.8 75.0 76.2 77.5 78.8 80.0 81.2 82.5 83.8 85.0 86.2 87.5 88.8 90.0 91.2 92.5 93.8 95.0 96.2 97.5 98.8 -found 1 predictions from path traversal Error with prediction: snap lend_intergenic: 2568, rend_intergenic: 2435 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 5766, rend_intergenic: 2762 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