-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_1143 -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 158, 189 Couldn't classify 2871, 2959 Sorry, prediction Augustus_model.g41549.t1 fails validation. (GTT) AG 158-189 GT TGG (CCC) AG 293-434 GT AGG (TAC) AG 693-789 GT TGG (GAA) AG 1089-1221 GT AGG (AGT) AG 1323-1475 GT TGG (AGC) AG 1571-1646 GT AGG (AGT) AG 1749-1850 GT AGG (ATG) AG 2074-2185 GT CGG (GTG) AG 2316-2431 GT AGG (AGG) AG 2580-2754 GT AGG (GCG) AG 2871-2959 GT AGG add_exon() Sorry, Augustus_model.g41549.t1 2074-2185-initial-1 is invalid. -recovered Augustus_model.g41549.t1, initial, 2074, 2185 -recovered Augustus_model.g41549.t1, internal, 158, 189 -recovered Augustus_model.g41549.t1, internal, 293, 434 -recovered Augustus_model.g41549.t1, internal, 693, 789 -recovered Augustus_model.g41549.t1, internal, 1089, 1221 -recovered Augustus_model.g41549.t1, internal, 1323, 1475 -recovered Augustus_model.g41549.t1, internal, 1571, 1646 -recovered Augustus_model.g41549.t1, internal, 1749, 1850 -recovered Augustus_model.g41549.t1, internal, 2074, 2185 -recovered Augustus_model.g41549.t1, internal, 2316, 2431 -recovered Augustus_model.g41549.t1, internal, 2580, 2754 -recovered Augustus_model.g41549.t1, internal, 2871, 2959 Valid prediction for GlimmerHMM_glimmerT_62497-T1 Couldn't classify 2147, 2185 Couldn't classify 2871, 2957 Sorry, prediction pasa_asmbl_7383.p1 fails validation. (AGC) CC 2147-2185 GT CGG (GTG) AG 2316-2431 GT AGG (AGG) AG 2580-2754 GT AGG (GCG) AG 2871-2957 AG ACA -recovered pasa_asmbl_7383.p1, internal, 2316, 2431 -recovered pasa_asmbl_7383.p1, internal, 2580, 2754 Couldn't classify 158, 189 Couldn't classify 2871, 2959 Sorry, prediction snap_scaffold_1143-snap.1-T1 fails validation. (GTT) AG 158-189 GT TGG (CCC) AG 293-434 GT AGG (TAC) AG 693-789 GT TGG (GAA) AG 1089-1221 GT AGG (AGT) AG 1323-1475 GT TGG (AGC) AG 1571-1646 GT AGG (AGT) AG 1749-1850 GT AGG (ATG) AG 2074-2185 GT CGG (GTG) AG 2316-2431 GT AGG (AGG) AG 2580-2754 GT AGG (GCG) AG 2871-2959 GT AGG add_exon() Sorry, snap_scaffold_1143-snap.1-T1 2074-2185-initial-1 is invalid. -recovered snap_scaffold_1143-snap.1-T1, initial, 2074, 2185 -recovered snap_scaffold_1143-snap.1-T1, internal, 158, 189 -recovered snap_scaffold_1143-snap.1-T1, internal, 293, 434 -recovered snap_scaffold_1143-snap.1-T1, internal, 693, 789 -recovered snap_scaffold_1143-snap.1-T1, internal, 1089, 1221 -recovered snap_scaffold_1143-snap.1-T1, internal, 1323, 1475 -recovered snap_scaffold_1143-snap.1-T1, internal, 1571, 1646 -recovered snap_scaffold_1143-snap.1-T1, internal, 1749, 1850 -recovered snap_scaffold_1143-snap.1-T1, internal, 2074, 2185 -recovered snap_scaffold_1143-snap.1-T1, internal, 2316, 2431 -recovered snap_scaffold_1143-snap.1-T1, internal, 2580, 2754 -recovered snap_scaffold_1143-snap.1-T1, internal, 2871, 2959 Couldn't classify 1749, 1761 Sorry, prediction pasa_asmbl_7382.p1 fails validation. (ATG) AC 337-434 GT AGG (TAC) AG 693-789 GT TGG (GAA) AG 1089-1221 GT AGG (AGT) AG 1323-1475 GT TGG (AGC) AG 1571-1646 GT AGG (AGT) AG 1749-1761 GC ATG -recovered pasa_asmbl_7382.p1, initial, 337, 434 -recovered pasa_asmbl_7382.p1, internal, 693, 789 -recovered pasa_asmbl_7382.p1, internal, 1089, 1221 -recovered pasa_asmbl_7382.p1, internal, 1323, 1475 -recovered pasa_asmbl_7382.p1, internal, 1571, 1646 -recovered pasa_asmbl_7382.p1, internal, 1749, 1761 Couldn't classify 293, 434 Couldn't classify 3106, 3145 Sorry, prediction GeneMark_model.108956_t fails validation. (CCC) AG 293-434 GT AGG (TAC) AG 693-789 GT TGG (GAA) AG 1089-1221 GT AGG (AGT) AG 1323-1475 GT TGG (TGA) AG 1751-1850 GT AGG (ATG) AG 2074-2185 GT CGG (GTG) AG 2316-2431 GT AGG (AGG) AG 2580-2754 GT AGG (CTC) AG 2850-2959 GT AGG (CGT) AG 3001-3021 GT GAG (CGT) AG 3061-3081 GT GAG (GGG) AG 3106-3145 GC CAG add_exon() Sorry, GeneMark_model.108956_t 2074-2185-initial-1 is invalid. -recovered GeneMark_model.108956_t, initial, 2074, 2185 -recovered GeneMark_model.108956_t, internal, 293, 434 -recovered GeneMark_model.108956_t, internal, 693, 789 -recovered GeneMark_model.108956_t, internal, 1089, 1221 -recovered GeneMark_model.108956_t, internal, 1323, 1475 -recovered GeneMark_model.108956_t, internal, 1751, 1850 -recovered GeneMark_model.108956_t, internal, 2074, 2185 -recovered GeneMark_model.108956_t, internal, 2316, 2431 -recovered GeneMark_model.108956_t, internal, 2580, 2754 -recovered GeneMark_model.108956_t, internal, 2850, 2959 -recovered GeneMark_model.108956_t, internal, 3001, 3021 -recovered GeneMark_model.108956_t, internal, 3061, 3081 -recovered GeneMark_model.108956_t, internal, 3106, 3145 -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 snap_scaffold_1143-snap.2-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2959, rend_intergenic: 289 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 3153 -exon list size: 30 building trellis 3.1 6.2 9.4 12.5 15.6 18.8 21.9 25.0 28.1 31.2 34.4 37.5 40.6 43.8 46.9 50.0 53.1 56.2 59.4 62.5 65.6 68.8 71.9 75.0 78.1 81.2 84.4 87.5 90.6 93.8 96.9 -found 1 predictions from path traversal Error with prediction: snap lend_intergenic: 2959, rend_intergenic: 289 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