-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_434 -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 3285, 3402 Couldn't classify 6540, 6671 Sorry, prediction snap_scaffold_434-snap.2-T1 fails validation. (AGT) AG 3285-3402 GT AGG (TTG) AG 6540-6671 GT GGG -recovered snap_scaffold_434-snap.2-T1, internal, 3285, 3402 -recovered snap_scaffold_434-snap.2-T1, internal, 6540, 6671 Couldn't classify 10, 45 Sorry, prediction GeneMark_model.107620_t fails validation. (AGG) AG 10-45 GT AGG (GAG) AG 69-77 GT AGG (AGG) AG 98-160 GT GAG (GTT) AG 227-371 GT AGG (TCC) AG 3275-3411 GT GAG (GTA) AG 3467-3496 GT AGG (GTA) AG 3527-3556 GT AGG (GTA) AG 3590-3619 GT AGG (GTA) AG 3680-3736 GT AGG (GTA) AG 3766-3802 GT AGG (GAG) AG 3829-3839 GT AGG (GTA) AG 3869-3901 GT AGG (GTA) AG 3932-3968 GT AGG (GAG) AG 4102-4112 GT AGG (GTA) AG 4142-4178 GT AGG (GAG) AG 4205-4215 GT AGG (AAG) AG 4245-4280 GT AGG (GAG) AG 4307-4318 GT AGG (TAC) AG 4349-4375 GT AGG (GTA) AG 4457-4493 GT AGG (GAG) AG 4520-4561 GT AGG (GAG) AG 4588-4601 GT AGG (AGA) AG 4627-4632 GT AGG (GTA) AG 4670-4699 GT AGG (GGA) AG 4804-4842 GT GGG (GGA) AG 4870-4884 GT AGG (AAA) AG 4908-4922 GT AGG (GCA) AG 4945-5047 GT AAG -recovered GeneMark_model.107620_t, terminal, 10, 45 -recovered GeneMark_model.107620_t, terminal, 4349, 4375 -recovered GeneMark_model.107620_t, terminal, 4945, 5047 -recovered GeneMark_model.107620_t, internal, 10, 45 -recovered GeneMark_model.107620_t, internal, 69, 77 -recovered GeneMark_model.107620_t, internal, 98, 160 -recovered GeneMark_model.107620_t, internal, 227, 371 -recovered GeneMark_model.107620_t, internal, 3275, 3411 -recovered GeneMark_model.107620_t, internal, 3467, 3496 -recovered GeneMark_model.107620_t, internal, 3527, 3556 -recovered GeneMark_model.107620_t, internal, 3590, 3619 -recovered GeneMark_model.107620_t, internal, 3680, 3736 -recovered GeneMark_model.107620_t, internal, 3766, 3802 -recovered GeneMark_model.107620_t, internal, 3829, 3839 -recovered GeneMark_model.107620_t, internal, 3869, 3901 -recovered GeneMark_model.107620_t, internal, 3932, 3968 -recovered GeneMark_model.107620_t, internal, 4102, 4112 -recovered GeneMark_model.107620_t, internal, 4142, 4178 -recovered GeneMark_model.107620_t, internal, 4205, 4215 -recovered GeneMark_model.107620_t, internal, 4245, 4280 -recovered GeneMark_model.107620_t, internal, 4307, 4318 -recovered GeneMark_model.107620_t, internal, 4349, 4375 -recovered GeneMark_model.107620_t, internal, 4457, 4493 -recovered GeneMark_model.107620_t, internal, 4520, 4561 -recovered GeneMark_model.107620_t, internal, 4588, 4601 -recovered GeneMark_model.107620_t, internal, 4627, 4632 -recovered GeneMark_model.107620_t, internal, 4670, 4699 -recovered GeneMark_model.107620_t, internal, 4804, 4842 -recovered GeneMark_model.107620_t, internal, 4870, 4884 -recovered GeneMark_model.107620_t, internal, 4908, 4922 -recovered GeneMark_model.107620_t, internal, 4945, 5047 -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 3577, 3774 Couldn't classify 6564, 6615 Sorry, prediction pasa_asmbl_43679.p1 fails validation. (CAG) TC 3577-3774 GT ACG (TAC) AG 4353-4385 GT TGG (GAT) AG 5004-5118 GT AGG (AGG) AG 5733-5790 GT GCG (GCT) AG 6564-6615 GG GCG -recovered pasa_asmbl_43679.p1, internal, 4353, 4385 -recovered pasa_asmbl_43679.p1, internal, 5004, 5118 -recovered pasa_asmbl_43679.p1, internal, 5733, 5790 Couldn't classify 12, 116 Sorry, prediction GeneMark_model.107621_t fails validation. (TAT) AG 12-116 GT AAG (GCA) AG 355-543 GT AAG (AGA) AG 1211-1250 AA GAA -recovered GeneMark_model.107621_t, terminal, 1211, 1250 -recovered GeneMark_model.107621_t, internal, 12, 116 -recovered GeneMark_model.107621_t, internal, 355, 543 Couldn't classify 1, 116 Couldn't classify 6564, 6659 Sorry, prediction Augustus_model.g41106.t1 fails validation. (CTT) TT 1-116 GT AAG (GCA) AG 355-487 GT AGG (TCA) AG 3580-3774 GT ACG (TAC) AG 4353-4385 GT TGG (GAT) AG 5004-5118 GT AGG (AGG) AG 5733-5790 GT GCG (GCT) AG 6564-6659 GT AAG -recovered Augustus_model.g41106.t1, internal, 355, 487 -recovered Augustus_model.g41106.t1, internal, 3580, 3774 -recovered Augustus_model.g41106.t1, internal, 4353, 4385 -recovered Augustus_model.g41106.t1, internal, 5004, 5118 -recovered Augustus_model.g41106.t1, internal, 5733, 5790 -recovered Augustus_model.g41106.t1, internal, 6564, 6659 Couldn't classify 355, 487 Sorry, prediction GlimmerHMM_glimmerT_61843-T1 fails validation. (GCA) AG 355-487 GT AGG (TCA) AG 3580-3774 GT ACG (GAT) AG 5004-5118 GT AGG (AGG) AG 5733-5794 GT GAG -recovered GlimmerHMM_glimmerT_61843-T1, terminal, 5733, 5794 -recovered GlimmerHMM_glimmerT_61843-T1, internal, 355, 487 -recovered GlimmerHMM_glimmerT_61843-T1, internal, 3580, 3774 -recovered GlimmerHMM_glimmerT_61843-T1, internal, 5004, 5118 -recovered GlimmerHMM_glimmerT_61843-T1, internal, 5733, 5794 Couldn't classify 10, 116 Couldn't classify 355, 553 Sorry, prediction pasa_asmbl_43681.p1 fails validation. (AGT) CT 10-116 GT AAG (GCA) AG 355-553 GC TCG -recovered pasa_asmbl_43681.p1, internal, 355, 553 Couldn't classify 28, 116 Couldn't classify 6564, 6659 Sorry, prediction snap_scaffold_434-snap.1-T1 fails validation. (CCC) AG 28-116 GT AAG (GCA) AG 355-543 GT AAG (ACC) AG 3624-3774 GT ACG (GAT) AG 5004-5118 GT AGG (AGG) AG 5733-5790 GT GCG (GCT) AG 6564-6659 GT AAG -recovered snap_scaffold_434-snap.1-T1, internal, 28, 116 -recovered snap_scaffold_434-snap.1-T1, internal, 355, 543 -recovered snap_scaffold_434-snap.1-T1, internal, 3624, 3774 -recovered snap_scaffold_434-snap.1-T1, internal, 5004, 5118 -recovered snap_scaffold_434-snap.1-T1, internal, 5733, 5790 -recovered snap_scaffold_434-snap.1-T1, internal, 6564, 6659 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6993, rend_intergenic: 3285 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 7020 -exon list size: 75 building trellis 1.3 2.6 3.9 5.2 6.5 7.8 9.1 10.4 11.7 13.0 14.3 15.6 16.9 18.2 19.5 20.8 22.1 23.4 24.7 26.0 27.3 28.6 29.9 31.2 32.5 33.8 35.1 36.4 37.7 39.0 40.3 41.6 42.9 44.2 45.5 46.8 48.1 49.4 50.6 51.9 53.2 54.5 55.8 57.1 58.4 59.7 61.0 62.3 63.6 64.9 66.2 67.5 68.8 70.1 71.4 72.7 74.0 75.3 76.6 77.9 79.2 80.5 81.8 83.1 84.4 85.7 87.0 88.3 89.6 90.9 92.2 93.5 94.8 96.1 97.4 98.7 -found 1 predictions from path traversal Error with prediction: snap lend_intergenic: 6993, rend_intergenic: 3285 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 1 predictions persist after filtering for low support