-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_23/scaffold_23_7801503-7977123 -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_51385-T1 Valid prediction for snap_scaffold_23-snap.1458-T1 Valid prediction for snap_scaffold_23-snap.1464-T1 Valid prediction for Augustus_model.g34375.t1 Valid prediction for GlimmerHMM_glimmerT_51372-T1 Valid prediction for GlimmerHMM_glimmerT_51384-T1 Valid prediction for HiQ_model.g34366.t1 Valid prediction for snap_scaffold_23-snap.1470-T1 Valid prediction for snap_scaffold_23-snap.1468-T1 Valid prediction for snap_scaffold_23-snap.1457-T1 Valid prediction for snap_scaffold_23-snap.1452-T1 Valid prediction for GlimmerHMM_glimmerT_51367-T1 Valid prediction for GlimmerHMM_glimmerT_51375-T1 Valid prediction for snap_scaffold_23-snap.1482-T1 Valid prediction for Augustus_model.g34360.t1 Valid prediction for snap_scaffold_23-snap.1484-T1 Couldn't classify 168717, 168745 Sorry, prediction pasa_asmbl_31743.p1 fails validation. (AAC) AC 168717-168745 GT AGG (GGA) AG 169861-169915 GT AGG (ATC) AG 170291-170456 GT AGG (GTG) AG 171037-171089 GT AGG (ATC) AG 171337-171449 GT GGG (GCT) AG 171636-171870 AA AGA -recovered pasa_asmbl_31743.p1, terminal, 171636, 171870 -recovered pasa_asmbl_31743.p1, internal, 169861, 169915 -recovered pasa_asmbl_31743.p1, internal, 170291, 170456 -recovered pasa_asmbl_31743.p1, internal, 171037, 171089 -recovered pasa_asmbl_31743.p1, internal, 171337, 171449 Valid prediction for snap_scaffold_23-snap.1485-T1 Valid prediction for pasa_asmbl_31740.p1 Valid prediction for Augustus_model.g34377.t1 Valid prediction for CodingQuarry_transcript_35737-T1 Valid prediction for GlimmerHMM_glimmerT_51369-T1 Valid prediction for pasa_asmbl_31737.p1 Valid prediction for Augustus_model.g34376.t1 Valid prediction for snap_scaffold_23-snap.1480-T1 Couldn't classify 153187, 153282 Couldn't classify 153752, 153839 Sorry, prediction pasa_asmbl_31741.p1 fails validation. (CGG) CC 153187-153282 GT TGG (GTG) AG 153456-153580 GT AGG (GTA) AG 153752-153839 AC AGA -recovered pasa_asmbl_31741.p1, internal, 153456, 153580 Valid prediction for snap_scaffold_23-snap.1473-T1 Valid prediction for GlimmerHMM_glimmerT_51387-T1 Valid prediction for snap_scaffold_23-snap.1453-T1 Valid prediction for snap_scaffold_23-snap.1461-T1 Valid prediction for GlimmerHMM_glimmerT_51389-T1 Valid prediction for GlimmerHMM_glimmerT_51388-T1 Valid prediction for snap_scaffold_23-snap.1459-T1 Valid prediction for snap_scaffold_23-snap.1474-T1 Valid prediction for snap_scaffold_23-snap.1477-T1 Valid prediction for GlimmerHMM_glimmerT_51379-T1 Valid prediction for Augustus_model.g34359.t1 Valid prediction for snap_scaffold_23-snap.1463-T1 Valid prediction for GlimmerHMM_glimmerT_51368-T1 Valid prediction for snap_scaffold_23-snap.1465-T1 Valid prediction for HiQ_model.g34372.t1 Valid prediction for Augustus_model.g34367.t1 Valid prediction for CodingQuarry_transcript_35742-T1 Couldn't classify 158549, 158584 Sorry, prediction pasa_asmbl_31742.p1 fails validation. (ATG) GA 155168-155292 GT AGG (GAA) AG 155405-155465 GT AGG (GTG) AG 157232-157393 GT AGG (ATC) AG 158038-158133 GT TGG (GGA) AG 158549-158584 AG GGA -recovered pasa_asmbl_31742.p1, initial, 155168, 155292 -recovered pasa_asmbl_31742.p1, internal, 155405, 155465 -recovered pasa_asmbl_31742.p1, internal, 157232, 157393 -recovered pasa_asmbl_31742.p1, internal, 158038, 158133 Valid prediction for CodingQuarry_transcript_35736-T1 Valid prediction for snap_scaffold_23-snap.1462-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for snap_scaffold_23-snap.1487-T1 Sorry, intron length (7) is less than minimum required (10) Couldn't classify 145501, 145580 Couldn't classify 145777, 145871 Sorry, prediction CodingQuarry_transcript_35743-T1 fails validation. (ATG) CG 145112-145217 GT AGG (TGT) AG 145382-145401 GT AGG (TAC) AG 145501-145580 TA AGT (TAT) CC 145777-145871 GT AGG (GTG) AG 146085-146201 GT TGG (ACA) AG 146306-146445 GT AGG (GTG) AG 146565-146609 AG GAA -recovered CodingQuarry_transcript_35743-T1, initial, 145112, 145217 -recovered CodingQuarry_transcript_35743-T1, terminal, 146565, 146609 -recovered CodingQuarry_transcript_35743-T1, internal, 145382, 145401 -recovered CodingQuarry_transcript_35743-T1, internal, 146085, 146201 -recovered CodingQuarry_transcript_35743-T1, internal, 146306, 146445 Valid prediction for snap_scaffold_23-snap.1475-T1 Valid prediction for GlimmerHMM_glimmerT_51378-T1 Couldn't classify 107536, 108276 Sorry, prediction pasa_asmbl_31739.p1 fails validation. (ATG) AT 107536-108276 AG GGA Valid prediction for Augustus_model.g34373.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 GlimmerHMM_glimmerT_51371-T1 Valid prediction for HiQ_model.g34364.t1 Valid prediction for snap_scaffold_23-snap.1467-T1 Valid prediction for HiQ_model.g34365.t1 Valid prediction for GlimmerHMM_glimmerT_51383-T1 Valid prediction for GlimmerHMM_glimmerT_51377-T1 Valid prediction for snap_scaffold_23-snap.1481-T1 Valid prediction for snap_scaffold_23-snap.1483-T1 Valid prediction for snap_scaffold_23-snap.1469-T1 Valid prediction for snap_scaffold_23-snap.1460-T1 Valid prediction for snap_scaffold_23-snap.1471-T1 Valid prediction for GlimmerHMM_glimmerT_51380-T1 Valid prediction for GlimmerHMM_glimmerT_51381-T1 Valid prediction for snap_scaffold_23-snap.1488-T1 Valid prediction for HiQ_model.g34368.t1 Valid prediction for snap_scaffold_23-snap.1479-T1 Valid prediction for snap_scaffold_23-snap.1486-T1 Valid prediction for CodingQuarry_transcript_35734-T1 Valid prediction for GlimmerHMM_glimmerT_51374-T1 Valid prediction for Augustus_model.g34370.t1 Valid prediction for Augustus_model.g34362.t1 Couldn't classify 101538, 101772 Sorry, prediction pasa_asmbl_31051.p1 fails validation. (GAA) AG 101538-101772 GT CAG (CCA) AG 102130-102250 GC AGG (GTT) AG 102701-102792 GT AGG (CCA) AG 102921-103135 GT AGG (ATT) AG 103667-103735 GT AGG (GTG) AG 104394-104495 CA AGC -recovered pasa_asmbl_31051.p1, terminal, 104394, 104495 -recovered pasa_asmbl_31051.p1, internal, 101538, 101772 -recovered pasa_asmbl_31051.p1, internal, 102130, 102250 -recovered pasa_asmbl_31051.p1, internal, 102701, 102792 -recovered pasa_asmbl_31051.p1, internal, 102921, 103135 -recovered pasa_asmbl_31051.p1, internal, 103667, 103735 Valid prediction for CodingQuarry_transcript_35738-T1 Valid prediction for snap_scaffold_23-snap.1456-T1 Couldn't classify 38610, 38807 Sorry, prediction pasa_asmbl_31066.p1 fails validation. (ATG) AG 32144-32180 GT TGG (TTA) AG 32338-32378 GT AGG (AGT) AG 32521-32604 GT AGG (ACC) AG 34132-34321 GT GGG (ACG) AG 34451-34617 GT AGG (ACG) AG 34987-35088 GT AGG (GAT) AG 35285-35456 GT AGG (AGG) AG 35843-35944 GT AGG (GCG) AG 36144-36232 GT AGG (TTG) AG 36768-36853 GT AGG (CCA) AG 38206-38353 GT CGG (GAT) AG 38610-38807 GC AAG -recovered pasa_asmbl_31066.p1, initial, 32144, 32180 -recovered pasa_asmbl_31066.p1, internal, 32144, 32180 -recovered pasa_asmbl_31066.p1, internal, 32338, 32378 -recovered pasa_asmbl_31066.p1, internal, 32521, 32604 -recovered pasa_asmbl_31066.p1, internal, 34132, 34321 -recovered pasa_asmbl_31066.p1, internal, 34451, 34617 -recovered pasa_asmbl_31066.p1, internal, 34987, 35088 -recovered pasa_asmbl_31066.p1, internal, 35285, 35456 -recovered pasa_asmbl_31066.p1, internal, 35843, 35944 -recovered pasa_asmbl_31066.p1, internal, 36144, 36232 -recovered pasa_asmbl_31066.p1, internal, 36768, 36853 -recovered pasa_asmbl_31066.p1, internal, 38206, 38353 -recovered pasa_asmbl_31066.p1, internal, 38610, 38807 Valid prediction for Augustus_model.g34361.t1 Valid prediction for CodingQuarry_transcript_35735-T1 Valid prediction for GlimmerHMM_glimmerT_51373-T1 Valid prediction for GlimmerHMM_glimmerT_51376-T1 Valid prediction for pasa_asmbl_31057.p1 Valid prediction for snap_scaffold_23-snap.1454-T1 Valid prediction for snap_scaffold_23-snap.1478-T1 Valid prediction for pasa_asmbl_31054.p1 Valid prediction for HiQ_model.g34371.t1 Valid prediction for GlimmerHMM_glimmerT_51382-T1 Valid prediction for Augustus_model.g34369.t1 Couldn't classify 99758, 99781 Sorry, prediction pasa_asmbl_31050.p1 fails validation. (AGG) TG 99758-99781 GT AGG (GAC) AG 99859-99923 GT AGG (GGT) AG 100393-100494 GT GGG (GTT) AG 100676-100906 GT AGG (GTG) AG 101145-101296 GT CTG (CCA) AG 102130-102250 GC AGG (GTT) AG 102701-102792 GT AGG (CCA) AG 102921-103135 GT AGG (ATT) AG 103667-103735 GT AGG (GTG) AG 104394-104495 CA AGC -recovered pasa_asmbl_31050.p1, terminal, 104394, 104495 -recovered pasa_asmbl_31050.p1, internal, 99859, 99923 -recovered pasa_asmbl_31050.p1, internal, 100393, 100494 -recovered pasa_asmbl_31050.p1, internal, 100676, 100906 -recovered pasa_asmbl_31050.p1, internal, 101145, 101296 -recovered pasa_asmbl_31050.p1, internal, 102130, 102250 -recovered pasa_asmbl_31050.p1, internal, 102701, 102792 -recovered pasa_asmbl_31050.p1, internal, 102921, 103135 -recovered pasa_asmbl_31050.p1, internal, 103667, 103735 Valid prediction for GlimmerHMM_glimmerT_51386-T1 Valid prediction for GlimmerHMM_glimmerT_51370-T1 Valid prediction for snap_scaffold_23-snap.1466-T1 Valid prediction for Augustus_model.g34374.t1 Valid prediction for Augustus_model.g34363.t1 Valid prediction for snap_scaffold_23-snap.1476-T1 Valid prediction for snap_scaffold_23-snap.1455-T1 Valid prediction for snap_scaffold_23-snap.1472-T1 Valid prediction for CodingQuarry_transcript_35740-T1 Valid prediction for CodingQuarry_transcript_35739-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: GlimmerHMM lend_intergenic: 110229, rend_intergenic: 110226 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 16007, rend_intergenic: 8563 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 22798, rend_intergenic: 16043 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 34599, rend_intergenic: 29172 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57010, rend_intergenic: 35134 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 69614, rend_intergenic: 63263 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 72947, rend_intergenic: 71792 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 74122, rend_intergenic: 73326 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 83366, rend_intergenic: 74870 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 114298, rend_intergenic: 112635 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 119219, rend_intergenic: 115174 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134105, rend_intergenic: 122777 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 138192, rend_intergenic: 135987 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 140641, rend_intergenic: 138273 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 155387, rend_intergenic: 152364 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 171870, rend_intergenic: 157192 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 175621 -exon list size: 497 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 25.1 25.3 25.5 25.7 25.9 26.1 26.3 26.5 26.7 26.9 27.1 27.3 27.5 27.7 27.9 28.1 28.3 28.5 28.7 28.9 29.1 29.3 29.5 29.7 29.9 30.1 30.3 30.5 30.7 30.9 31.1 31.3 31.5 31.7 31.9 32.1 32.3 32.5 32.7 32.9 33.1 33.3 33.5 33.7 33.9 34.1 34.3 34.5 34.7 34.9 35.1 35.3 35.5 35.7 35.9 36.1 36.3 36.5 36.7 36.9 37.1 37.3 37.5 37.7 37.9 38.1 38.3 38.5 38.7 38.9 39.1 39.3 39.5 39.7 39.9 40.1 40.3 40.5 40.7 40.9 41.1 41.3 41.5 41.7 41.9 42.1 42.3 42.5 42.7 42.9 43.1 43.3 43.5 43.7 43.9 44.1 44.3 44.5 44.7 44.9 45.1 45.3 45.5 45.7 45.9 46.1 46.3 46.5 46.7 46.9 47.1 47.3 47.5 47.7 47.9 48.1 48.3 48.5 48.7 48.9 49.1 49.3 49.5 49.7 49.9 50.1 50.3 50.5 50.7 50.9 51.1 51.3 51.5 51.7 51.9 52.1 52.3 52.5 52.7 52.9 53.1 53.3 53.5 53.7 53.9 54.1 54.3 54.5 54.7 54.9 55.1 55.3 55.5 55.7 55.9 56.1 56.3 56.5 56.7 56.9 57.1 57.3 57.5 57.7 57.9 58.1 58.3 58.5 58.7 58.9 59.1 59.3 59.5 59.7 59.9 60.1 60.3 60.5 60.7 60.9 61.1 61.3 61.5 61.7 61.9 62.1 62.3 62.5 62.7 62.9 63.1 63.3 63.5 63.7 63.9 64.1 64.3 64.5 64.7 64.9 65.1 65.3 65.5 65.7 65.9 66.1 66.3 66.5 66.7 66.9 67.1 67.3 67.5 67.7 67.9 68.1 68.3 68.5 68.7 68.9 69.1 69.3 69.5 69.7 69.9 70.1 70.3 70.5 70.7 70.9 71.1 71.3 71.5 71.7 71.9 72.1 72.3 72.5 72.7 72.9 73.1 73.3 73.5 73.7 73.9 74.1 74.3 74.5 74.7 74.9 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 22 predictions from path traversal Error with prediction: GlimmerHMM lend_intergenic: 110229, rend_intergenic: 110226 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 16007, rend_intergenic: 8563 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 22798, rend_intergenic: 16043 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 34599, rend_intergenic: 29172 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 57010, rend_intergenic: 35134 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 69614, rend_intergenic: 63263 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 72947, rend_intergenic: 71792 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 74122, rend_intergenic: 73326 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 83366, rend_intergenic: 74870 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 114298, rend_intergenic: 112635 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 119219, rend_intergenic: 115174 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134105, rend_intergenic: 122777 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 138192, rend_intergenic: 135987 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 140641, rend_intergenic: 138273 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 155387, rend_intergenic: 152364 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 171870, rend_intergenic: 157192 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 20 predictions persist after filtering for low support