-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_14/scaffold_14_6568883-6821896 -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 GlimmerHMM_glimmerT_34060-T1 Valid prediction for pasa_asmbl_12087.p1 Valid prediction for snap_scaffold_14-snap.1382-T1 Valid prediction for Augustus_model.g22737.t1 Couldn't classify 210637, 210936 Sorry, prediction pasa_asmbl_12104.p1 fails validation. (ATG) AC 210637-210936 GA ATG Valid prediction for GlimmerHMM_glimmerT_34058-T1 Valid prediction for snap_scaffold_14-snap.1388-T1 Valid prediction for snap_scaffold_14-snap.1364-T1 Valid prediction for snap_scaffold_14-snap.1355-T1 Valid prediction for CodingQuarry_transcript_15680-T1 Valid prediction for CodingQuarry_transcript_15677-T1 Valid prediction for Augustus_model.g22748.t1 Valid prediction for Augustus_model.g22751.t1 Valid prediction for pasa_asmbl_12093.p1 Valid prediction for snap_scaffold_14-snap.1370-T1 Valid prediction for HiQ_model.g22746.t1 Valid prediction for GlimmerHMM_glimmerT_34043-T1 Valid prediction for snap_scaffold_14-snap.1372-T1 Valid prediction for Augustus_model.g22739.t1 Valid prediction for snap_scaffold_14-snap.1365-T1 Couldn't classify 123834, 123999 Sorry, prediction pasa_asmbl_12101.p1 fails validation. (AAG) CA 123834-123999 GT AGG (GTC) AG 124365-124517 GT AGG (ACG) AG 127481-127530 GT AGG (GTC) AG 127740-128145 GT AGG (GGC) AG 128685-128806 GT AGG (ATT) AG 128971-129100 GT AGG (GTG) AG 130684-130777 GT AGG (CGA) AG 131063-131294 GT TGG (AAC) AG 133565-133687 GT AGG (ATC) AG 133876-134085 GT TGG (TTC) AG 134660-134873 GT GGG (GTG) AG 136257-136519 AA GAA -recovered pasa_asmbl_12101.p1, terminal, 136257, 136519 -recovered pasa_asmbl_12101.p1, internal, 124365, 124517 -recovered pasa_asmbl_12101.p1, internal, 127481, 127530 -recovered pasa_asmbl_12101.p1, internal, 127740, 128145 -recovered pasa_asmbl_12101.p1, internal, 128685, 128806 -recovered pasa_asmbl_12101.p1, internal, 128971, 129100 -recovered pasa_asmbl_12101.p1, internal, 130684, 130777 -recovered pasa_asmbl_12101.p1, internal, 131063, 131294 -recovered pasa_asmbl_12101.p1, internal, 133565, 133687 -recovered pasa_asmbl_12101.p1, internal, 133876, 134085 -recovered pasa_asmbl_12101.p1, internal, 134660, 134873 Couldn't classify 188283, 188380 Couldn't classify 190635, 190731 Sorry, prediction pasa_asmbl_12756.p2 fails validation. (CTG) GA 188283-188380 GT AAG (AGG) AG 189878-190072 GT AGG (GTG) AG 190635-190731 CT CGC -recovered pasa_asmbl_12756.p2, internal, 189878, 190072 Valid prediction for snap_scaffold_14-snap.1387-T1 Couldn't classify 193454, 193739 Sorry, prediction pasa_asmbl_12103.p1 fails validation. (GCC) CC 193454-193739 GT AGG (ATG) AG 194153-194275 GT ACG (GAC) AG 194548-194702 AC AAA add_exon() Sorry, pasa_asmbl_12103.p1 194153-194275-initial-1 is invalid. -recovered pasa_asmbl_12103.p1, initial, 194153, 194275 -recovered pasa_asmbl_12103.p1, terminal, 194548, 194702 -recovered pasa_asmbl_12103.p1, internal, 194153, 194275 Valid prediction for GlimmerHMM_glimmerT_34038-T1 Valid prediction for snap_scaffold_14-snap.1359-T1 Valid prediction for snap_scaffold_14-snap.1386-T1 Valid prediction for snap_scaffold_14-snap.1353-T1 Valid prediction for GlimmerHMM_glimmerT_34066-T1 Valid prediction for GlimmerHMM_glimmerT_34051-T1 Valid prediction for snap_scaffold_14-snap.1377-T1 Valid prediction for GlimmerHMM_glimmerT_34044-T1 Valid prediction for Augustus_model.g22753.t1 Valid prediction for snap_scaffold_14-snap.1373-T1 Valid prediction for Augustus_model.g22735.t1 Valid prediction for snap_scaffold_14-snap.1362-T1 Valid prediction for Augustus_model.g22742.t1 Valid prediction for snap_scaffold_14-snap.1380-T1 Valid prediction for pasa_asmbl_12099.p1 Valid prediction for GlimmerHMM_glimmerT_34055-T1 Valid prediction for Augustus_model.g22736.t1 Valid prediction for snap_scaffold_14-snap.1375-T1 Valid prediction for snap_scaffold_14-snap.1384-T1 Valid prediction for snap_scaffold_14-snap.1350-T1 Valid prediction for pasa_asmbl_12095.p1 Valid prediction for CodingQuarry_transcript_15673-T1 Valid prediction for Augustus_model.g22750.t1 Valid prediction for snap_scaffold_14-snap.1376-T1 Valid prediction for snap_scaffold_14-snap.1378-T1 Valid prediction for GlimmerHMM_glimmerT_34042-T1 Valid prediction for snap_scaffold_14-snap.1371-T1 Valid prediction for CodingQuarry_transcript_15678-T1 Valid prediction for GlimmerHMM_glimmerT_34047-T1 Couldn't classify 211264, 212121 Sorry, prediction pasa_asmbl_12105.p1 fails validation. (GAA) AG 211264-212121 AC AGA Valid prediction for snap_scaffold_14-snap.1361-T1 Valid prediction for snap_scaffold_14-snap.1390-T1 Valid prediction for Augustus_model.g22740.t1 Valid prediction for GlimmerHMM_glimmerT_34053-T1 Valid prediction for GlimmerHMM_glimmerT_34040-T1 Valid prediction for GlimmerHMM_glimmerT_34065-T1 Valid prediction for Augustus_model.g22744.t1 Valid prediction for snap_scaffold_14-snap.1357-T1 Valid prediction for GlimmerHMM_glimmerT_34041-T1 Couldn't classify 62905, 63072 Sorry, prediction pasa_asmbl_12094.p1 fails validation. (GAA) CG 62905-63072 GT CGG (CCC) AG 63294-63492 GT GGG (TCA) AG 63654-64342 GT AGG (ATT) AG 64513-64698 GC GAG -recovered pasa_asmbl_12094.p1, terminal, 64513, 64698 -recovered pasa_asmbl_12094.p1, internal, 63294, 63492 -recovered pasa_asmbl_12094.p1, internal, 63654, 64342 -recovered pasa_asmbl_12094.p1, internal, 64513, 64698 Valid prediction for GlimmerHMM_glimmerT_34049-T1 Valid prediction for GlimmerHMM_glimmerT_34063-T1 Valid prediction for Augustus_model.g22738.t1 Valid prediction for snap_scaffold_14-snap.1367-T1 Valid prediction for CodingQuarry_transcript_15679-T1 Valid prediction for snap_scaffold_14-snap.1352-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: -)Couldn't classify 101132, 101350 Sorry, prediction pasa_asmbl_13152.p1 fails validation. (ATC) GA 101132-101350 GT AGG (GAG) AG 103115-103198 CC GAC -recovered pasa_asmbl_13152.p1, terminal, 103115, 103198 Valid prediction for snap_scaffold_14-snap.1366-T1 Valid prediction for Augustus_model.g22745.t1 Valid prediction for snap_scaffold_14-snap.1374-T1 Couldn't classify 130008, 130122 Sorry, prediction pasa_asmbl_13149.p1 fails validation. (TTA) CA 130008-130122 GT AGG (AAT) AG 130242-131651 GC AGG (GGA) AG 131753-131886 GT AGG (ATC) AG 132905-133023 GT CAG (CTG) AG 133224-133367 GT ACG (GTA) AG 133955-134100 GT GGG (CGC) AG 135244-135398 GT AAG (AAT) AG 136602-136743 GT CGG (GTA) AG 138338-138507 AT GAA -recovered pasa_asmbl_13149.p1, terminal, 138338, 138507 -recovered pasa_asmbl_13149.p1, internal, 130242, 131651 -recovered pasa_asmbl_13149.p1, internal, 131753, 131886 -recovered pasa_asmbl_13149.p1, internal, 132905, 133023 -recovered pasa_asmbl_13149.p1, internal, 133224, 133367 -recovered pasa_asmbl_13149.p1, internal, 133955, 134100 -recovered pasa_asmbl_13149.p1, internal, 135244, 135398 -recovered pasa_asmbl_13149.p1, internal, 136602, 136743 Valid prediction for snap_scaffold_14-snap.1354-T1 Valid prediction for snap_scaffold_14-snap.1358-T1 Valid prediction for GlimmerHMM_glimmerT_34045-T1 Valid prediction for snap_scaffold_14-snap.1379-T1 Valid prediction for snap_scaffold_14-snap.1356-T1 Valid prediction for GlimmerHMM_glimmerT_34050-T1 Valid prediction for HiQ_model.g22741.t1 Valid prediction for GlimmerHMM_glimmerT_34057-T1 Valid prediction for Augustus_model.g22749.t1 Valid prediction for Augustus_model.g22754.t1 Valid prediction for CodingQuarry_transcript_15676-T1 Valid prediction for GlimmerHMM_glimmerT_34064-T1 Couldn't classify 85299, 85805 Sorry, prediction pasa_asmbl_13156.p1 fails validation. (ATG) CC 85299-85805 AC AAA Valid prediction for snap_scaffold_14-snap.1383-T1 Valid prediction for GlimmerHMM_glimmerT_34056-T1 Valid prediction for GlimmerHMM_glimmerT_34067-T1 Valid prediction for HiQ_model.g22743.t1 Valid prediction for snap_scaffold_14-snap.1360-T1 Valid prediction for pasa_asmbl_13146.p1 Valid prediction for GlimmerHMM_glimmerT_34046-T1 Valid prediction for GlimmerHMM_glimmerT_34054-T1 Valid prediction for pasa_asmbl_13154.p1 Valid prediction for snap_scaffold_14-snap.1368-T1 Valid prediction for Augustus_model.g22747.t1 Valid prediction for Augustus_model.g22755.t1 Valid prediction for snap_scaffold_14-snap.1389-T1 Valid prediction for GlimmerHMM_glimmerT_34062-T1 Valid prediction for GlimmerHMM_glimmerT_34039-T1 Valid prediction for Augustus_model.g22752.t1 Valid prediction for GlimmerHMM_glimmerT_34052-T1 Valid prediction for snap_scaffold_14-snap.1369-T1 Valid prediction for GlimmerHMM_glimmerT_34059-T1 Valid prediction for GlimmerHMM_glimmerT_34048-T1 Valid prediction for snap_scaffold_14-snap.1385-T1 Valid prediction for GlimmerHMM_glimmerT_34061-T1 Valid prediction for CodingQuarry_transcript_15675-T1 Valid prediction for pasa_asmbl_13142.p1 Valid prediction for snap_scaffold_14-snap.1381-T1 Valid prediction for snap_scaffold_14-snap.1363-T1 Couldn't classify 46868, 47021 Sorry, prediction pasa_asmbl_13157.p1 fails validation. (CAT) AC 46868-47021 GT CGG (ACG) AG 49408-49622 GT TGG (TGC) AG 50005-50184 GT AGG (GTG) AG 50401-50487 GT AGG (ACG) AG 50605-50704 GT TGG (TGA) AG 51105-51209 GT AGG (GTT) AG 51519-51730 GT AGG (GCC) AG 53117-53262 GT TAG (TCT) AG 53561-53675 GT AGG (GAT) AG 54101-54349 GT CTG (GTG) AG 54669-55017 GT AGG (GCC) AG 55236-55409 GT AGG (ACC) AG 55642-55829 GT CGG (CCA) AG 56135-56275 GT AGG (GAA) AG 56471-56497 TA AGT -recovered pasa_asmbl_13157.p1, terminal, 56471, 56497 -recovered pasa_asmbl_13157.p1, internal, 49408, 49622 -recovered pasa_asmbl_13157.p1, internal, 50005, 50184 -recovered pasa_asmbl_13157.p1, internal, 50401, 50487 -recovered pasa_asmbl_13157.p1, internal, 50605, 50704 -recovered pasa_asmbl_13157.p1, internal, 51105, 51209 -recovered pasa_asmbl_13157.p1, internal, 51519, 51730 -recovered pasa_asmbl_13157.p1, internal, 53117, 53262 -recovered pasa_asmbl_13157.p1, internal, 53561, 53675 -recovered pasa_asmbl_13157.p1, internal, 54101, 54349 -recovered pasa_asmbl_13157.p1, internal, 54669, 55017 -recovered pasa_asmbl_13157.p1, internal, 55236, 55409 -recovered pasa_asmbl_13157.p1, internal, 55642, 55829 -recovered pasa_asmbl_13157.p1, internal, 56135, 56275 Valid prediction for snap_scaffold_14-snap.1351-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14519, rend_intergenic: 12390 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 33967, rend_intergenic: 32606 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 41642, rend_intergenic: 39342 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 47109, rend_intergenic: 42024 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 47404, rend_intergenic: 47122 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 51228, rend_intergenic: 47573 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57109, rend_intergenic: 53063 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 88785, rend_intergenic: 79497 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 167716, rend_intergenic: 159320 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 188477, rend_intergenic: 186838 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 190409, rend_intergenic: 189467 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 204112, rend_intergenic: 199239 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 209917, rend_intergenic: 205076 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 248341, rend_intergenic: 240165 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 253014 -exon list size: 498 building trellis 0.2 0.4 0.6 0.8 1.0 1.2 1.4 1.6 1.8 2.0 2.2 2.4 2.6 2.8 3.0 3.2 3.4 3.6 3.8 4.0 4.2 4.4 4.6 4.8 5.0 5.2 5.4 5.6 5.8 6.0 6.2 6.4 6.6 6.8 7.0 7.2 7.4 7.6 7.8 8.0 8.2 8.4 8.6 8.8 9.0 9.2 9.4 9.6 9.8 10.0 10.2 10.4 10.6 10.8 11.0 11.2 11.4 11.6 11.8 12.0 12.2 12.4 12.6 12.8 13.0 13.2 13.4 13.6 13.8 14.0 14.2 14.4 14.6 14.8 15.0 15.2 15.4 15.6 15.8 16.0 16.2 16.4 16.6 16.8 17.0 17.2 17.4 17.6 17.8 18.0 18.2 18.4 18.6 18.8 19.0 19.2 19.4 19.6 19.8 20.0 20.2 20.4 20.6 20.8 21.0 21.2 21.4 21.6 21.8 22.0 22.2 22.4 22.6 22.8 23.0 23.2 23.4 23.6 23.8 24.0 24.2 24.4 24.6 24.8 25.0 25.2 25.4 25.6 25.8 26.0 26.2 26.4 26.6 26.8 27.0 27.2 27.4 27.6 27.8 28.0 28.2 28.4 28.6 28.8 29.0 29.2 29.4 29.6 29.8 30.0 30.2 30.4 30.6 30.8 31.0 31.2 31.4 31.6 31.8 32.0 32.2 32.4 32.6 32.8 33.0 33.2 33.4 33.6 33.8 34.0 34.2 34.4 34.6 34.8 35.0 35.2 35.4 35.6 35.8 36.0 36.2 36.4 36.6 36.8 37.0 37.2 37.4 37.6 37.8 38.0 38.2 38.4 38.6 38.8 39.0 39.2 39.4 39.6 39.8 40.0 40.2 40.4 40.6 40.8 41.0 41.2 41.4 41.6 41.8 42.0 42.2 42.4 42.6 42.8 43.0 43.2 43.4 43.6 43.8 44.0 44.2 44.4 44.6 44.8 45.0 45.2 45.4 45.6 45.8 46.0 46.2 46.4 46.6 46.8 47.0 47.2 47.4 47.6 47.8 48.0 48.2 48.4 48.6 48.8 49.0 49.2 49.4 49.6 49.8 50.0 50.2 50.4 50.6 50.8 51.0 51.2 51.4 51.6 51.8 52.0 52.2 52.4 52.6 52.8 53.0 53.2 53.4 53.6 53.8 54.0 54.2 54.4 54.6 54.8 55.0 55.2 55.4 55.6 55.8 56.0 56.2 56.4 56.6 56.8 57.0 57.2 57.4 57.6 57.8 58.0 58.2 58.4 58.6 58.8 59.0 59.2 59.4 59.6 59.8 60.0 60.2 60.4 60.6 60.8 61.0 61.2 61.4 61.6 61.8 62.0 62.2 62.4 62.6 62.8 63.0 63.2 63.4 63.6 63.8 64.0 64.2 64.4 64.6 64.8 65.0 65.2 65.4 65.6 65.8 66.0 66.2 66.4 66.6 66.8 67.0 67.2 67.4 67.6 67.8 68.0 68.2 68.4 68.6 68.8 69.0 69.2 69.4 69.6 69.8 70.0 70.2 70.4 70.6 70.8 71.0 71.2 71.4 71.6 71.8 72.0 72.2 72.4 72.6 72.8 73.0 73.2 73.4 73.6 73.8 74.0 74.2 74.4 74.6 74.8 75.0 75.2 75.4 75.6 75.8 76.0 76.2 76.4 76.6 76.8 77.0 77.2 77.4 77.6 77.8 78.0 78.2 78.4 78.6 78.8 79.0 79.2 79.4 79.6 79.8 80.0 80.2 80.4 80.6 80.8 81.0 81.2 81.4 81.6 81.8 82.0 82.2 82.4 82.6 82.8 83.0 83.2 83.4 83.6 83.8 84.0 84.2 84.4 84.6 84.8 85.0 85.2 85.4 85.6 85.8 86.0 86.2 86.4 86.6 86.8 87.0 87.2 87.4 87.6 87.8 88.0 88.2 88.4 88.6 88.8 89.0 89.2 89.4 89.6 89.8 90.0 90.2 90.4 90.6 90.8 91.0 91.2 91.4 91.6 91.8 92.0 92.2 92.4 92.6 92.8 93.0 93.2 93.4 93.6 93.8 94.0 94.2 94.4 94.6 94.8 95.0 95.2 95.4 95.6 95.8 96.0 96.2 96.4 96.6 96.8 97.0 97.2 97.4 97.6 97.8 98.0 98.2 98.4 98.6 98.8 99.0 99.2 99.4 99.6 99.8 -found 26 predictions from path traversal Error with prediction: snap lend_intergenic: 14519, rend_intergenic: 12390 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 33967, rend_intergenic: 32606 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 41642, rend_intergenic: 39342 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 47109, rend_intergenic: 42024 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 47404, rend_intergenic: 47122 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 51228, rend_intergenic: 47573 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57109, rend_intergenic: 53063 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 88785, rend_intergenic: 79497 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 167716, rend_intergenic: 159320 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 188477, rend_intergenic: 186838 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 190409, rend_intergenic: 189467 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 204112, rend_intergenic: 199239 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 209917, rend_intergenic: 205076 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 248341, rend_intergenic: 240165 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 22 predictions persist after filtering for low support