-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_12/scaffold_12_12783878-12974673 -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 snap_scaffold_12-snap.2374-T1 Valid prediction for snap_scaffold_12-snap.2383-T1 Valid prediction for pasa_asmbl_8035.p1 Valid prediction for Augustus_model.g20019.t1 Valid prediction for snap_scaffold_12-snap.2355-T1 Valid prediction for GlimmerHMM_glimmerT_30242-T1 Valid prediction for HiQ_model.g20023.t1 Valid prediction for HiQ_model.g20018.t1 Couldn't classify 54702, 54931 Sorry, prediction pasa_asmbl_8030.p1 fails validation. (GAG) CC 54702-54931 GT AGG (GAT) AG 55095-55171 GT TGG (GCC) AG 55297-55490 GT AGG (AAA) AG 55608-55693 GT GGG (CTA) AG 55808-55931 GT AGG (AGA) AG 56288-56414 GT TGG (GAC) AG 56524-56579 GT ATG (GGG) AG 56787-56895 GT AGG (AGG) AG 57143-57346 GT CAG (TGA) AG 57599-57690 GT AGG (GAG) AG 58126-58240 GT AGG (GAA) AG 59145-59242 GG GAG -recovered pasa_asmbl_8030.p1, terminal, 59145, 59242 -recovered pasa_asmbl_8030.p1, internal, 55095, 55171 -recovered pasa_asmbl_8030.p1, internal, 55297, 55490 -recovered pasa_asmbl_8030.p1, internal, 55608, 55693 -recovered pasa_asmbl_8030.p1, internal, 55808, 55931 -recovered pasa_asmbl_8030.p1, internal, 56288, 56414 -recovered pasa_asmbl_8030.p1, internal, 56524, 56579 -recovered pasa_asmbl_8030.p1, internal, 56787, 56895 -recovered pasa_asmbl_8030.p1, internal, 57143, 57346 -recovered pasa_asmbl_8030.p1, internal, 57599, 57690 -recovered pasa_asmbl_8030.p1, internal, 58126, 58240 Valid prediction for GlimmerHMM_glimmerT_30235-T1 Valid prediction for snap_scaffold_12-snap.2366-T1 Valid prediction for GlimmerHMM_glimmerT_30250-T1 Valid prediction for Augustus_model.g20029.t1 Valid prediction for GlimmerHMM_glimmerT_30252-T1 Valid prediction for Augustus_model.g20020.t1 Valid prediction for GlimmerHMM_glimmerT_30240-T1 Couldn't classify 22415, 23131 Sorry, prediction pasa_asmbl_8026.p1 fails validation. (ACC) GT 22415-23131 CG AGC Valid prediction for snap_scaffold_12-snap.2364-T1 Valid prediction for GlimmerHMM_glimmerT_30233-T1 Valid prediction for snap_scaffold_12-snap.2358-T1 Valid prediction for GlimmerHMM_glimmerT_30249-T1 Valid prediction for CodingQuarry_transcript_10435-T1 Valid prediction for GlimmerHMM_glimmerT_30236-T1 Valid prediction for snap_scaffold_12-snap.2350-T1 Valid prediction for GlimmerHMM_glimmerT_30237-T1 Valid prediction for snap_scaffold_12-snap.2367-T1 Valid prediction for snap_scaffold_12-snap.2361-T1 Valid prediction for CodingQuarry_transcript_10432-T1 Valid prediction for GlimmerHMM_glimmerT_30244-T1 Valid prediction for GlimmerHMM_glimmerT_30253-T1 Valid prediction for Augustus_model.g20015.t1 Valid prediction for GlimmerHMM_glimmerT_30245-T1 Valid prediction for GlimmerHMM_glimmerT_30234-T1 Valid prediction for snap_scaffold_12-snap.2349-T1 Valid prediction for GlimmerHMM_glimmerT_30231-T1 Couldn't classify 21462, 21612 Couldn't classify 22000, 22116 Sorry, prediction pasa_asmbl_8025.p1 fails validation. (GAG) AG 21462-21612 GT TGG (CAG) AG 21706-21824 GT AGG (TTT) AG 22000-22116 GT CAG -recovered pasa_asmbl_8025.p1, internal, 21462, 21612 -recovered pasa_asmbl_8025.p1, internal, 21706, 21824 -recovered pasa_asmbl_8025.p1, internal, 22000, 22116 Valid prediction for GlimmerHMM_glimmerT_30248-T1 Valid prediction for pasa_asmbl_8022.p1 Valid prediction for Augustus_model.g20024.t1 Valid prediction for Augustus_model.g20017.t1 Valid prediction for GlimmerHMM_glimmerT_30254-T1 Couldn't classify 4306, 4343 Couldn't classify 5228, 5281 Sorry, prediction pasa_asmbl_8018.p1 fails validation. (CCT) CC 4306-4343 GT CTG (GTC) AG 4550-4637 GT AGG (GCG) AG 4790-4911 GT CTG (GTG) AG 5015-5114 GT AGG (ACC) AG 5228-5281 CT AGC -recovered pasa_asmbl_8018.p1, internal, 4550, 4637 -recovered pasa_asmbl_8018.p1, internal, 4790, 4911 -recovered pasa_asmbl_8018.p1, internal, 5015, 5114 Valid prediction for snap_scaffold_12-snap.2347-T1 Valid prediction for snap_scaffold_12-snap.2371-T1 Valid prediction for snap_scaffold_12-snap.2380-T1 Couldn't classify 71361, 71399 Sorry, prediction pasa_asmbl_8032.p1 fails validation. (AGA) GG 71361-71399 GT AGG (GTG) AG 71510-71671 GT TGG (ATG) AG 72010-72219 GT AGG (GAG) AG 72343-72456 GT TGG (GTG) AG 72606-72752 GT TGG (AAG) AG 73090-73257 GT AGG (GAA) AG 73771-73830 GT AAG (AGG) AG 75949-76077 GT ACG (GGT) AG 76193-76321 GT GGG (ACG) AG 76594-76677 GT AGG (GAC) AG 77744-77806 GT AGG (ATG) AG 78023-78202 CC GAC -recovered pasa_asmbl_8032.p1, initial, 72010, 72219 -recovered pasa_asmbl_8032.p1, terminal, 78023, 78202 -recovered pasa_asmbl_8032.p1, internal, 71510, 71671 -recovered pasa_asmbl_8032.p1, internal, 72010, 72219 -recovered pasa_asmbl_8032.p1, internal, 72343, 72456 -recovered pasa_asmbl_8032.p1, internal, 72606, 72752 -recovered pasa_asmbl_8032.p1, internal, 73090, 73257 -recovered pasa_asmbl_8032.p1, internal, 73771, 73830 -recovered pasa_asmbl_8032.p1, internal, 75949, 76077 -recovered pasa_asmbl_8032.p1, internal, 76193, 76321 -recovered pasa_asmbl_8032.p1, internal, 76594, 76677 -recovered pasa_asmbl_8032.p1, internal, 77744, 77806 Valid prediction for snap_scaffold_12-snap.2381-T1 Valid prediction for snap_scaffold_12-snap.2372-T1 Valid prediction for snap_scaffold_12-snap.2379-T1 Valid prediction for snap_scaffold_12-snap.2345-T1 Valid prediction for Augustus_model.g20026.t1 Valid prediction for snap_scaffold_12-snap.2357-T1 Couldn't classify 135361, 136227 Sorry, prediction pasa_asmbl_8033.p1 fails validation. (ATG) AT 135361-136227 TA GGT Couldn't classify 42852, 42996 Sorry, prediction pasa_asmbl_8027.p1 fails validation. (ATG) GG 38856-38888 GT AGG (GTG) AG 39820-39997 GT CAG (ACA) AG 40833-40997 GT GTG (TGT) AG 41117-41286 GT AGG (GTG) AG 42481-42572 GT AGG (TGT) AG 42852-42996 AG GGA -recovered pasa_asmbl_8027.p1, initial, 38856, 38888 -recovered pasa_asmbl_8027.p1, internal, 39820, 39997 -recovered pasa_asmbl_8027.p1, internal, 40833, 40997 -recovered pasa_asmbl_8027.p1, internal, 41117, 41286 -recovered pasa_asmbl_8027.p1, internal, 42481, 42572 Valid prediction for GlimmerHMM_glimmerT_30238-T1 Valid prediction for snap_scaffold_12-snap.2356-T1 Valid prediction for GlimmerHMM_glimmerT_30247-T1 Valid prediction for snap_scaffold_12-snap.2370-T1 Valid prediction for Augustus_model.g20025.t1 Valid prediction for snap_scaffold_12-snap.2377-T1 Valid prediction for snap_scaffold_12-snap.2348-T1 Valid prediction for snap_scaffold_12-snap.2376-T1 Valid prediction for CodingQuarry_transcript_10433-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 snap_scaffold_12-snap.2352-T1 Couldn't classify 7723, 8076 Sorry, prediction pasa_asmbl_8897.p1 fails validation. (GTC) CC 7723-8076 GG GAG Valid prediction for snap_scaffold_12-snap.2346-T1 Valid prediction for snap_scaffold_12-snap.2365-T1 Valid prediction for snap_scaffold_12-snap.2362-T1 Valid prediction for Augustus_model.g20032.t1 Valid prediction for snap_scaffold_12-snap.2378-T1 Valid prediction for GlimmerHMM_glimmerT_30246-T1 Valid prediction for Augustus_model.g20030.t1 Valid prediction for HiQ_model.g20021.t1 Valid prediction for snap_scaffold_12-snap.2351-T1 Valid prediction for snap_scaffold_12-snap.2373-T1 Valid prediction for snap_scaffold_12-snap.2368-T1 Valid prediction for Augustus_model.g20031.t1 Valid prediction for Augustus_model.g20022.t1 Valid prediction for Augustus_model.g20028.t1 Valid prediction for GlimmerHMM_glimmerT_30256-T1 Valid prediction for snap_scaffold_12-snap.2375-T1 Couldn't classify 141135, 141283 Sorry, prediction pasa_asmbl_8894.p1 fails validation. (ATG) AC 137552-138020 GT AGG (AGG) AG 139921-139997 GT GGG (ATG) AG 140077-140221 GT AGG (GCA) AG 140646-140819 GT AGG (ACG) AG 140918-140998 GT CTG (CCA) AG 141135-141283 CT CGC -recovered pasa_asmbl_8894.p1, initial, 137552, 138020 -recovered pasa_asmbl_8894.p1, initial, 140077, 140221 -recovered pasa_asmbl_8894.p1, internal, 139921, 139997 -recovered pasa_asmbl_8894.p1, internal, 140077, 140221 -recovered pasa_asmbl_8894.p1, internal, 140646, 140819 -recovered pasa_asmbl_8894.p1, internal, 140918, 140998 Valid prediction for Augustus_model.g20027.t1 Valid prediction for GlimmerHMM_glimmerT_30232-T1 Valid prediction for GlimmerHMM_glimmerT_30239-T1 Valid prediction for GlimmerHMM_glimmerT_30243-T1 Valid prediction for GlimmerHMM_glimmerT_30241-T1 Valid prediction for snap_scaffold_12-snap.2382-T1 Valid prediction for pasa_asmbl_8892.p1 Valid prediction for snap_scaffold_12-snap.2369-T1 Couldn't classify 145189, 145491 Sorry, prediction pasa_asmbl_8891.p1 fails validation. (ATG) TT 145189-145491 CG CCC Valid prediction for snap_scaffold_12-snap.2363-T1 Valid prediction for snap_scaffold_12-snap.2360-T1 Couldn't classify 176266, 176340 Sorry, prediction pasa_asmbl_8890.p1 fails validation. (TGG) AT 176266-176340 GT AGG (GAC) AG 176951-177019 GT AGG (GCA) AG 177229-177363 GT GAG (GGA) AG 177556-177632 GT AGG (GTT) AG 177755-177893 GT AGG (GCG) AG 178118-178203 GT CGG (TTC) AG 178324-178415 GT AGG (TCT) AG 178629-178806 GT CGG (GGA) AG 179186-179357 GT GGG (AAC) AG 179454-179597 GT CGG (GTA) AG 179698-179880 CA AAC -recovered pasa_asmbl_8890.p1, terminal, 179698, 179880 -recovered pasa_asmbl_8890.p1, internal, 176951, 177019 -recovered pasa_asmbl_8890.p1, internal, 177229, 177363 -recovered pasa_asmbl_8890.p1, internal, 177556, 177632 -recovered pasa_asmbl_8890.p1, internal, 177755, 177893 -recovered pasa_asmbl_8890.p1, internal, 178118, 178203 -recovered pasa_asmbl_8890.p1, internal, 178324, 178415 -recovered pasa_asmbl_8890.p1, internal, 178629, 178806 -recovered pasa_asmbl_8890.p1, internal, 179186, 179357 -recovered pasa_asmbl_8890.p1, internal, 179454, 179597 Valid prediction for CodingQuarry_transcript_10434-T1 Valid prediction for GlimmerHMM_glimmerT_30251-T1 Valid prediction for HiQ_model.g20016.t1 Valid prediction for snap_scaffold_12-snap.2353-T1 Valid prediction for snap_scaffold_12-snap.2354-T1 Valid prediction for GlimmerHMM_glimmerT_30255-T1 Valid prediction for snap_scaffold_12-snap.2359-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 43143, rend_intergenic: 27678 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 53872, rend_intergenic: 49584 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 75394, rend_intergenic: 64229 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 75629, rend_intergenic: 75444 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 82315, rend_intergenic: 77687 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93452, rend_intergenic: 85602 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 122903, rend_intergenic: 101375 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134446, rend_intergenic: 130124 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 160609, rend_intergenic: 154145 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 165621, rend_intergenic: 163866 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 182429, rend_intergenic: 173586 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 183104, rend_intergenic: 182721 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 190592, rend_intergenic: 185670 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 190796 -exon list size: 417 building trellis 0.2 0.5 0.7 1.0 1.2 1.4 1.7 1.9 2.1 2.4 2.6 2.9 3.1 3.3 3.6 3.8 4.1 4.3 4.5 4.8 5.0 5.3 5.5 5.7 6.0 6.2 6.4 6.7 6.9 7.2 7.4 7.6 7.9 8.1 8.4 8.6 8.8 9.1 9.3 9.5 9.8 10.0 10.3 10.5 10.7 11.0 11.2 11.5 11.7 11.9 12.2 12.4 12.6 12.9 13.1 13.4 13.6 13.8 14.1 14.3 14.6 14.8 15.0 15.3 15.5 15.8 16.0 16.2 16.5 16.7 16.9 17.2 17.4 17.7 17.9 18.1 18.4 18.6 18.9 19.1 19.3 19.6 19.8 20.0 20.3 20.5 20.8 21.0 21.2 21.5 21.7 22.0 22.2 22.4 22.7 22.9 23.2 23.4 23.6 23.9 24.1 24.3 24.6 24.8 25.1 25.3 25.5 25.8 26.0 26.3 26.5 26.7 27.0 27.2 27.4 27.7 27.9 28.2 28.4 28.6 28.9 29.1 29.4 29.6 29.8 30.1 30.3 30.5 30.8 31.0 31.3 31.5 31.7 32.0 32.2 32.5 32.7 32.9 33.2 33.4 33.7 33.9 34.1 34.4 34.6 34.8 35.1 35.3 35.6 35.8 36.0 36.3 36.5 36.8 37.0 37.2 37.5 37.7 37.9 38.2 38.4 38.7 38.9 39.1 39.4 39.6 39.9 40.1 40.3 40.6 40.8 41.1 41.3 41.5 41.8 42.0 42.2 42.5 42.7 43.0 43.2 43.4 43.7 43.9 44.2 44.4 44.6 44.9 45.1 45.3 45.6 45.8 46.1 46.3 46.5 46.8 47.0 47.3 47.5 47.7 48.0 48.2 48.4 48.7 48.9 49.2 49.4 49.6 49.9 50.1 50.4 50.6 50.8 51.1 51.3 51.6 51.8 52.0 52.3 52.5 52.7 53.0 53.2 53.5 53.7 53.9 54.2 54.4 54.7 54.9 55.1 55.4 55.6 55.8 56.1 56.3 56.6 56.8 57.0 57.3 57.5 57.8 58.0 58.2 58.5 58.7 58.9 59.2 59.4 59.7 59.9 60.1 60.4 60.6 60.9 61.1 61.3 61.6 61.8 62.1 62.3 62.5 62.8 63.0 63.2 63.5 63.7 64.0 64.2 64.4 64.7 64.9 65.2 65.4 65.6 65.9 66.1 66.3 66.6 66.8 67.1 67.3 67.5 67.8 68.0 68.3 68.5 68.7 69.0 69.2 69.5 69.7 69.9 70.2 70.4 70.6 70.9 71.1 71.4 71.6 71.8 72.1 72.3 72.6 72.8 73.0 73.3 73.5 73.7 74.0 74.2 74.5 74.7 74.9 75.2 75.4 75.7 75.9 76.1 76.4 76.6 76.8 77.1 77.3 77.6 77.8 78.0 78.3 78.5 78.8 79.0 79.2 79.5 79.7 80.0 80.2 80.4 80.7 80.9 81.1 81.4 81.6 81.9 82.1 82.3 82.6 82.8 83.1 83.3 83.5 83.8 84.0 84.2 84.5 84.7 85.0 85.2 85.4 85.7 85.9 86.2 86.4 86.6 86.9 87.1 87.4 87.6 87.8 88.1 88.3 88.5 88.8 89.0 89.3 89.5 89.7 90.0 90.2 90.5 90.7 90.9 91.2 91.4 91.6 91.9 92.1 92.4 92.6 92.8 93.1 93.3 93.6 93.8 94.0 94.3 94.5 94.7 95.0 95.2 95.5 95.7 95.9 96.2 96.4 96.7 96.9 97.1 97.4 97.6 97.9 98.1 98.3 98.6 98.8 99.0 99.3 99.5 99.8 -found 27 predictions from path traversal Error with prediction: snap lend_intergenic: 43143, rend_intergenic: 27678 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 53872, rend_intergenic: 49584 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 75394, rend_intergenic: 64229 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 75629, rend_intergenic: 75444 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 82315, rend_intergenic: 77687 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93452, rend_intergenic: 85602 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 122903, rend_intergenic: 101375 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134446, rend_intergenic: 130124 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 160609, rend_intergenic: 154145 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 165621, rend_intergenic: 163866 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 182429, rend_intergenic: 173586 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 183104, rend_intergenic: 182721 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 190592, rend_intergenic: 185670 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 19 predictions persist after filtering for low support