-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_5611034-6000204 -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 Augustus_model.g16499.t1 Valid prediction for GlimmerHMM_glimmerT_24812-T1 Valid prediction for pasa_asmbl_3194.p1 Valid prediction for GlimmerHMM_glimmerT_24805-T1 Valid prediction for GlimmerHMM_glimmerT_24803-T1 Valid prediction for Augustus_model.g16501.t1 Valid prediction for CodingQuarry_transcript_5416-T1 Valid prediction for HiQ_model.g16500.t1 Valid prediction for GlimmerHMM_glimmerT_24815-T1 Valid prediction for snap_scaffold_10-snap.1246-T1 Valid prediction for Augustus_model.g16496.t1 Valid prediction for GlimmerHMM_glimmerT_24807-T1 Valid prediction for snap_scaffold_10-snap.1218-T1 Valid prediction for snap_scaffold_10-snap.1211-T1 Valid prediction for snap_scaffold_10-snap.1217-T1 Couldn't classify 192331, 192474 Sorry, prediction pasa_asmbl_3201.p1 fails validation. (TAC) AC 192331-192474 GT AGG (ATG) AG 192779-193126 GT AGG (CAC) AG 193440-193503 GT TGG (ATT) AG 193854-193861 CC AAC -recovered pasa_asmbl_3201.p1, initial, 192779, 193126 -recovered pasa_asmbl_3201.p1, terminal, 193854, 193861 -recovered pasa_asmbl_3201.p1, internal, 192779, 193126 -recovered pasa_asmbl_3201.p1, internal, 193440, 193503 Valid prediction for Augustus_model.g16508.t1 Valid prediction for GlimmerHMM_glimmerT_24801-T1 Valid prediction for CodingQuarry_transcript_5424-T1 Valid prediction for pasa_asmbl_3209.p1 Valid prediction for snap_scaffold_10-snap.1250-T1 Valid prediction for GlimmerHMM_glimmerT_24817-T1 Valid prediction for snap_scaffold_10-snap.1249-T1 Valid prediction for GlimmerHMM_glimmerT_24826-T1 Valid prediction for snap_scaffold_10-snap.1231-T1 Valid prediction for Augustus_model.g16507.t1 Valid prediction for HiQ_model.g16512.t1 Valid prediction for Augustus_model.g16503.t1 Valid prediction for CodingQuarry_transcript_5419-T1 Valid prediction for CodingQuarry_transcript_5429-T1 Valid prediction for GlimmerHMM_glimmerT_24813-T1 Valid prediction for pasa_asmbl_3196.p1 Valid prediction for snap_scaffold_10-snap.1230-T1 Valid prediction for pasa_asmbl_3212.p1 Valid prediction for GlimmerHMM_glimmerT_24800-T1 Valid prediction for snap_scaffold_10-snap.1242-T1 Valid prediction for GlimmerHMM_glimmerT_24821-T1 Valid prediction for CodingQuarry_transcript_5420-T1 Valid prediction for snap_scaffold_10-snap.1253-T1 Valid prediction for snap_scaffold_10-snap.1213-T1 Valid prediction for GlimmerHMM_glimmerT_24809-T1 Valid prediction for HiQ_model.g16498.t1 Valid prediction for snap_scaffold_10-snap.1229-T1 Valid prediction for Augustus_model.g16520.t1 Valid prediction for snap_scaffold_10-snap.1248-T1 Valid prediction for GlimmerHMM_glimmerT_24797-T1 Valid prediction for Augustus_model.g16510.t1 Valid prediction for snap_scaffold_10-snap.1216-T1 Valid prediction for snap_scaffold_10-snap.1221-T1 Valid prediction for pasa_asmbl_3203.p1 Valid prediction for snap_scaffold_10-snap.1226-T1 Valid prediction for pasa_asmbl_3191.p1 Valid prediction for snap_scaffold_10-snap.1220-T1 Valid prediction for GlimmerHMM_glimmerT_24810-T1 Couldn't classify 190864, 191038 Couldn't classify 191665, 191865 Sorry, prediction pasa_asmbl_3200.p1 fails validation. (CGC) AC 190864-191038 GT GAG (GAC) AG 191268-191395 GT AGG (GCC) AG 191665-191865 AG GCA -recovered pasa_asmbl_3200.p1, internal, 191268, 191395 Valid prediction for snap_scaffold_10-snap.1252-T1 Valid prediction for snap_scaffold_10-snap.1247-T1 Valid prediction for GlimmerHMM_glimmerT_24802-T1 Valid prediction for GlimmerHMM_glimmerT_24799-T1 Valid prediction for snap_scaffold_10-snap.1223-T1 Valid prediction for snap_scaffold_10-snap.1219-T1 Valid prediction for snap_scaffold_10-snap.1251-T1 Valid prediction for CodingQuarry_transcript_5417-T1 Valid prediction for HiQ_model.g16521.t1 Valid prediction for snap_scaffold_10-snap.1234-T1 Valid prediction for Augustus_model.g16505.t1 Valid prediction for GlimmerHMM_glimmerT_24793-T1 Valid prediction for CodingQuarry_transcript_5425-T1 Valid prediction for GlimmerHMM_glimmerT_24804-T1 Valid prediction for CodingQuarry_transcript_5418-T1 Valid prediction for snap_scaffold_10-snap.1215-T1 Valid prediction for CodingQuarry_transcript_5422-T1 Valid prediction for GlimmerHMM_glimmerT_24825-T1 Valid prediction for snap_scaffold_10-snap.1227-T1 -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 Augustus_model.g16516.t1 Valid prediction for snap_scaffold_10-snap.1236-T1 Valid prediction for HiQ_model.g16506.t1 Valid prediction for GlimmerHMM_glimmerT_24794-T1 Valid prediction for GlimmerHMM_glimmerT_24816-T1 Valid prediction for CodingQuarry_transcript_5428-T1 Valid prediction for pasa_asmbl_4389.p1 Valid prediction for snap_scaffold_10-snap.1239-T1 Valid prediction for snap_scaffold_10-snap.1254-T1 Valid prediction for HiQ_model.g16504.t1 Valid prediction for snap_scaffold_10-snap.1244-T1 Valid prediction for GlimmerHMM_glimmerT_24822-T1 Valid prediction for GlimmerHMM_glimmerT_24824-T1 Valid prediction for snap_scaffold_10-snap.1225-T1 Couldn't classify 102538, 102615 Sorry, prediction pasa_asmbl_5134.p1 fails validation. (ATG) AG 99455-99494 GT ATG (TGA) AG 99754-99896 GT AGG (GCA) AG 100343-100470 GT GAG (TCT) AG 100634-100694 GT AGG (GCA) AG 101076-101180 GT AGG (GAG) AG 101475-101630 GT TGG (GAT) AG 101978-102079 GT AGG (AAA) AG 102538-102615 TG AGT -recovered pasa_asmbl_5134.p1, initial, 99455, 99494 -recovered pasa_asmbl_5134.p1, internal, 99455, 99494 -recovered pasa_asmbl_5134.p1, internal, 99754, 99896 -recovered pasa_asmbl_5134.p1, internal, 100343, 100470 -recovered pasa_asmbl_5134.p1, internal, 100634, 100694 -recovered pasa_asmbl_5134.p1, internal, 101076, 101180 -recovered pasa_asmbl_5134.p1, internal, 101475, 101630 -recovered pasa_asmbl_5134.p1, internal, 101978, 102079 Valid prediction for GlimmerHMM_glimmerT_24806-T1 Valid prediction for HiQ_model.g16497.t1 Valid prediction for GlimmerHMM_glimmerT_24823-T1 Valid prediction for pasa_asmbl_4377.p1 Valid prediction for CodingQuarry_transcript_5426-T1 Valid prediction for pasa_asmbl_4409.p1 Valid prediction for HiQ_model.g16519.t1 Valid prediction for HiQ_model.g16502.t1 Valid prediction for snap_scaffold_10-snap.1240-T1 Valid prediction for CodingQuarry_transcript_5421-T1 Valid prediction for snap_scaffold_10-snap.1222-T1 Valid prediction for GlimmerHMM_glimmerT_24820-T1 Couldn't classify 76827, 76840 Sorry, prediction pasa_asmbl_4407.p1 fails validation. (TCA) CA 76827-76840 GT CAG (ATA) AG 77015-77121 GT AGG (GTT) AG 77338-77463 GT AGG (CAA) AG 77625-77782 GT AGG (CAC) AG 78019-78108 GC AAG add_exon() Sorry, pasa_asmbl_4407.p1 77338-77463-terminal-1 is invalid. -recovered pasa_asmbl_4407.p1, terminal, 77338, 77463 -recovered pasa_asmbl_4407.p1, terminal, 78019, 78108 -recovered pasa_asmbl_4407.p1, internal, 77015, 77121 -recovered pasa_asmbl_4407.p1, internal, 77338, 77463 -recovered pasa_asmbl_4407.p1, internal, 77625, 77782 -recovered pasa_asmbl_4407.p1, internal, 78019, 78108 Couldn't classify 182985, 183311 Sorry, prediction pasa_asmbl_4387.p1 fails validation. (CCT) AT 182985-183311 AG GAA Valid prediction for CodingQuarry_transcript_5427-T1 Valid prediction for Augustus_model.g16522.t1 Couldn't classify 57097, 57249 Couldn't classify 60841, 60920 Sorry, prediction pasa_asmbl_4412.p1 fails validation. (AGC) GC 57097-57249 GT TGG (GTG) AG 57400-57621 GT CAG (TTT) AG 58289-58489 GT AGG (ACA) AG 59251-59367 GT AGG (GTC) AG 59548-59696 GT AGG (TCT) AG 60493-60614 GT TTG (GGG) AG 60841-60920 AG ACA -recovered pasa_asmbl_4412.p1, internal, 57400, 57621 -recovered pasa_asmbl_4412.p1, internal, 58289, 58489 -recovered pasa_asmbl_4412.p1, internal, 59251, 59367 -recovered pasa_asmbl_4412.p1, internal, 59548, 59696 -recovered pasa_asmbl_4412.p1, internal, 60493, 60614 Valid prediction for GlimmerHMM_glimmerT_24811-T1 Couldn't classify 10506, 10578 Sorry, prediction pasa_asmbl_4414.p1 fails validation. (TTC) GC 10506-10578 GT TGG (ATC) AG 10703-10787 GT CAG (GTG) AG 10914-10995 GT AGG (AAA) AG 11326-11616 GG GAG -recovered pasa_asmbl_4414.p1, terminal, 11326, 11616 -recovered pasa_asmbl_4414.p1, internal, 10703, 10787 -recovered pasa_asmbl_4414.p1, internal, 10914, 10995 Valid prediction for GlimmerHMM_glimmerT_24819-T1 Valid prediction for GlimmerHMM_glimmerT_24818-T1 Valid prediction for CodingQuarry_transcript_5415-T1 Valid prediction for GlimmerHMM_glimmerT_24796-T1 Valid prediction for snap_scaffold_10-snap.1245-T1 Valid prediction for Augustus_model.g16523.t1 Valid prediction for GlimmerHMM_glimmerT_24827-T1 Valid prediction for snap_scaffold_10-snap.1238-T1 Valid prediction for Augustus_model.g16518.t1 Valid prediction for pasa_asmbl_4398.p2 Valid prediction for HiQ_model.g16509.t1 Couldn't classify 97043, 97187 Couldn't classify 99116, 99208 Sorry, prediction pasa_asmbl_5212.p1 fails validation. (CAG) AT 97043-97187 GT GCG (CCA) AG 98670-98767 GT GAG (GAC) AG 99116-99208 GT TTG -recovered pasa_asmbl_5212.p1, internal, 98670, 98767 -recovered pasa_asmbl_5212.p1, internal, 99116, 99208 Valid prediction for Augustus_model.g16511.t1 Valid prediction for snap_scaffold_10-snap.1233-T1 Couldn't classify 133369, 133473 Sorry, prediction pasa_asmbl_4402.p1 fails validation. (CAA) CC 133369-133473 GT CGG (GAA) AG 133574-133708 GT AGG (CTG) AG 136139-136303 CG GAC -recovered pasa_asmbl_4402.p1, terminal, 136139, 136303 -recovered pasa_asmbl_4402.p1, internal, 133574, 133708 Valid prediction for snap_scaffold_10-snap.1243-T1 Valid prediction for Augustus_model.g16515.t1 Valid prediction for snap_scaffold_10-snap.1241-T1 Valid prediction for GlimmerHMM_glimmerT_24808-T1 Valid prediction for HiQ_model.g16514.t1 Valid prediction for snap_scaffold_10-snap.1212-T1 Valid prediction for GlimmerHMM_glimmerT_24814-T1 Valid prediction for pasa_asmbl_4381.p1 Couldn't classify 190005, 190242 Sorry, prediction pasa_asmbl_4385.p1 fails validation. (AAG) TG 190005-190242 GT AGG (GAT) AG 190917-191257 AG GAA -recovered pasa_asmbl_4385.p1, terminal, 190917, 191257 Valid prediction for snap_scaffold_10-snap.1237-T1 Valid prediction for Augustus_model.g16517.t1 Couldn't classify 182165, 182273 Sorry, prediction pasa_asmbl_4388.p1 fails validation. (ATG) AG 180002-180052 GT AGG (GAG) AG 180340-180474 GT AAG (GAG) AG 180572-180692 GT CTG (CTA) AG 180797-180870 GT AGG (GAA) AG 180955-181030 GT GGG (TGT) AG 181169-181317 GT AGG (GCC) AG 181404-181485 GT AGG (GAC) AG 181577-181671 GT AGG (GTG) AG 181793-181920 GT ACG (GGA) AG 182165-182273 CA AGC -recovered pasa_asmbl_4388.p1, initial, 180002, 180052 -recovered pasa_asmbl_4388.p1, internal, 180002, 180052 -recovered pasa_asmbl_4388.p1, internal, 180340, 180474 -recovered pasa_asmbl_4388.p1, internal, 180572, 180692 -recovered pasa_asmbl_4388.p1, internal, 180797, 180870 -recovered pasa_asmbl_4388.p1, internal, 180955, 181030 -recovered pasa_asmbl_4388.p1, internal, 181169, 181317 -recovered pasa_asmbl_4388.p1, internal, 181404, 181485 -recovered pasa_asmbl_4388.p1, internal, 181577, 181671 -recovered pasa_asmbl_4388.p1, internal, 181793, 181920 Couldn't classify 75111, 75147 Couldn't classify 76670, 76793 Sorry, prediction pasa_asmbl_4408.p1 fails validation. (CTG) TG 75111-75147 GT GGG (GTC) AG 75407-75571 GT AGG (AGG) AG 75924-76092 GT AGG (GGA) AG 76670-76793 AT ACA -recovered pasa_asmbl_4408.p1, internal, 75407, 75571 -recovered pasa_asmbl_4408.p1, internal, 75924, 76092 Valid prediction for snap_scaffold_10-snap.1232-T1 Valid prediction for snap_scaffold_10-snap.1214-T1 Valid prediction for Augustus_model.g16513.t1 Valid prediction for pasa_asmbl_4378.p1 Valid prediction for GlimmerHMM_glimmerT_24798-T1 Valid prediction for snap_scaffold_10-snap.1255-T1 Valid prediction for snap_scaffold_10-snap.1228-T1 Valid prediction for GlimmerHMM_glimmerT_24795-T1 Valid prediction for snap_scaffold_10-snap.1235-T1 Valid prediction for snap_scaffold_10-snap.1224-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 65924, rend_intergenic: 61019 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 282288, rend_intergenic: 274500 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 332066, rend_intergenic: 323709 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 389171 -exon list size: 671 building trellis 0.1 0.3 0.4 0.6 0.7 0.9 1.0 1.2 1.3 1.5 1.6 1.8 1.9 2.1 2.2 2.4 2.5 2.7 2.8 3.0 3.1 3.3 3.4 3.6 3.7 3.9 4.0 4.2 4.3 4.5 4.6 4.8 4.9 5.1 5.2 5.3 5.5 5.6 5.8 5.9 6.1 6.2 6.4 6.5 6.7 6.8 7.0 7.1 7.3 7.4 7.6 7.7 7.9 8.0 8.2 8.3 8.5 8.6 8.8 8.9 9.1 9.2 9.4 9.5 9.7 9.8 10.0 10.1 10.3 10.4 10.5 10.7 10.8 11.0 11.1 11.3 11.4 11.6 11.7 11.9 12.0 12.2 12.3 12.5 12.6 12.8 12.9 13.1 13.2 13.4 13.5 13.7 13.8 14.0 14.1 14.3 14.4 14.6 14.7 14.9 15.0 15.2 15.3 15.5 15.6 15.8 15.9 16.0 16.2 16.3 16.5 16.6 16.8 16.9 17.1 17.2 17.4 17.5 17.7 17.8 18.0 18.1 18.3 18.4 18.6 18.7 18.9 19.0 19.2 19.3 19.5 19.6 19.8 19.9 20.1 20.2 20.4 20.5 20.7 20.8 21.0 21.1 21.2 21.4 21.5 21.7 21.8 22.0 22.1 22.3 22.4 22.6 22.7 22.9 23.0 23.2 23.3 23.5 23.6 23.8 23.9 24.1 24.2 24.4 24.5 24.7 24.8 25.0 25.1 25.3 25.4 25.6 25.7 25.9 26.0 26.2 26.3 26.4 26.6 26.7 26.9 27.0 27.2 27.3 27.5 27.6 27.8 27.9 28.1 28.2 28.4 28.5 28.7 28.8 29.0 29.1 29.3 29.4 29.6 29.7 29.9 30.0 30.2 30.3 30.5 30.6 30.8 30.9 31.1 31.2 31.4 31.5 31.6 31.8 31.9 32.1 32.2 32.4 32.5 32.7 32.8 33.0 33.1 33.3 33.4 33.6 33.7 33.9 34.0 34.2 34.3 34.5 34.6 34.8 34.9 35.1 35.2 35.4 35.5 35.7 35.8 36.0 36.1 36.3 36.4 36.6 36.7 36.8 37.0 37.1 37.3 37.4 37.6 37.7 37.9 38.0 38.2 38.3 38.5 38.6 38.8 38.9 39.1 39.2 39.4 39.5 39.7 39.8 40.0 40.1 40.3 40.4 40.6 40.7 40.9 41.0 41.2 41.3 41.5 41.6 41.8 41.9 42.1 42.2 42.3 42.5 42.6 42.8 42.9 43.1 43.2 43.4 43.5 43.7 43.8 44.0 44.1 44.3 44.4 44.6 44.7 44.9 45.0 45.2 45.3 45.5 45.6 45.8 45.9 46.1 46.2 46.4 46.5 46.7 46.8 47.0 47.1 47.3 47.4 47.5 47.7 47.8 48.0 48.1 48.3 48.4 48.6 48.7 48.9 49.0 49.2 49.3 49.5 49.6 49.8 49.9 50.1 50.2 50.4 50.5 50.7 50.8 51.0 51.1 51.3 51.4 51.6 51.7 51.9 52.0 52.2 52.3 52.5 52.6 52.7 52.9 53.0 53.2 53.3 53.5 53.6 53.8 53.9 54.1 54.2 54.4 54.5 54.7 54.8 55.0 55.1 55.3 55.4 55.6 55.7 55.9 56.0 56.2 56.3 56.5 56.6 56.8 56.9 57.1 57.2 57.4 57.5 57.7 57.8 57.9 58.1 58.2 58.4 58.5 58.7 58.8 59.0 59.1 59.3 59.4 59.6 59.7 59.9 60.0 60.2 60.3 60.5 60.6 60.8 60.9 61.1 61.2 61.4 61.5 61.7 61.8 62.0 62.1 62.3 62.4 62.6 62.7 62.9 63.0 63.2 63.3 63.4 63.6 63.7 63.9 64.0 64.2 64.3 64.5 64.6 64.8 64.9 65.1 65.2 65.4 65.5 65.7 65.8 66.0 66.1 66.3 66.4 66.6 66.7 66.9 67.0 67.2 67.3 67.5 67.6 67.8 67.9 68.1 68.2 68.4 68.5 68.6 68.8 68.9 69.1 69.2 69.4 69.5 69.7 69.8 70.0 70.1 70.3 70.4 70.6 70.7 70.9 71.0 71.2 71.3 71.5 71.6 71.8 71.9 72.1 72.2 72.4 72.5 72.7 72.8 73.0 73.1 73.3 73.4 73.6 73.7 73.8 74.0 74.1 74.3 74.4 74.6 74.7 74.9 75.0 75.2 75.3 75.5 75.6 75.8 75.9 76.1 76.2 76.4 76.5 76.7 76.8 77.0 77.1 77.3 77.4 77.6 77.7 77.9 78.0 78.2 78.3 78.5 78.6 78.8 78.9 79.0 79.2 79.3 79.5 79.6 79.8 79.9 80.1 80.2 80.4 80.5 80.7 80.8 81.0 81.1 81.3 81.4 81.6 81.7 81.9 82.0 82.2 82.3 82.5 82.6 82.8 82.9 83.1 83.2 83.4 83.5 83.7 83.8 84.0 84.1 84.2 84.4 84.5 84.7 84.8 85.0 85.1 85.3 85.4 85.6 85.7 85.9 86.0 86.2 86.3 86.5 86.6 86.8 86.9 87.1 87.2 87.4 87.5 87.7 87.8 88.0 88.1 88.3 88.4 88.6 88.7 88.9 89.0 89.2 89.3 89.5 89.6 89.7 89.9 90.0 90.2 90.3 90.5 90.6 90.8 90.9 91.1 91.2 91.4 91.5 91.7 91.8 92.0 92.1 92.3 92.4 92.6 92.7 92.9 93.0 93.2 93.3 93.5 93.6 93.8 93.9 94.1 94.2 94.4 94.5 94.7 94.8 94.9 95.1 95.2 95.4 95.5 95.7 95.8 96.0 96.1 96.3 96.4 96.6 96.7 96.9 97.0 97.2 97.3 97.5 97.6 97.8 97.9 98.1 98.2 98.4 98.5 98.7 98.8 99.0 99.1 99.3 99.4 99.6 99.7 99.9 -found 35 predictions from path traversal Error with prediction: snap lend_intergenic: 65924, rend_intergenic: 61019 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 282288, rend_intergenic: 274500 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 332066, rend_intergenic: 323709 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 35 predictions persist after filtering for low support