-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_26/scaffold_26_7961427-8256117 -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 215663, 216035 Sorry, prediction pasa_asmbl_35685.p1 fails validation. (CCC) CT 215663-216035 GT TGG (GTG) AG 217808-218110 GC TGG (GTC) AG 218426-218715 GG GAG -recovered pasa_asmbl_35685.p1, terminal, 218426, 218715 -recovered pasa_asmbl_35685.p1, internal, 217808, 218110 Valid prediction for GlimmerHMM_glimmerT_57534-T1 Valid prediction for Augustus_model.g38328.t1 Valid prediction for GlimmerHMM_glimmerT_57533-T1 Valid prediction for GlimmerHMM_glimmerT_57515-T1 Valid prediction for GlimmerHMM_glimmerT_57536-T1 Valid prediction for GeneMark_model.100300_t Valid prediction for GlimmerHMM_glimmerT_57522-T1 Valid prediction for snap_scaffold_26-snap.1899-T1 Valid prediction for snap_scaffold_26-snap.1891-T1 Valid prediction for GlimmerHMM_glimmerT_57527-T1 Valid prediction for snap_scaffold_26-snap.1890-T1 Valid prediction for snap_scaffold_26-snap.1886-T1 Valid prediction for snap_scaffold_26-snap.1903-T1 Valid prediction for GeneMark_model.100310_t Valid prediction for snap_scaffold_26-snap.1894-T1 Valid prediction for GeneMark_model.100285_t Valid prediction for GeneMark_model.100296_t Valid prediction for GeneMark_model.100297_t Valid prediction for GlimmerHMM_glimmerT_57525-T1 Valid prediction for snap_scaffold_26-snap.1896-T1 Valid prediction for snap_scaffold_26-snap.1895-T1 Valid prediction for Augustus_model.g38327.t1 Valid prediction for Augustus_model.g38325.t1 Couldn't classify 143345, 143479 Couldn't classify 144851, 145035 Sorry, prediction pasa_asmbl_35682.p1 fails validation. (CGG) TG 143345-143479 GT TGG (ATT) AG 144583-144727 GT AGG (GTT) AG 144851-145035 GT AGG -recovered pasa_asmbl_35682.p1, internal, 144583, 144727 -recovered pasa_asmbl_35682.p1, internal, 144851, 145035 Valid prediction for GeneMark_model.100293_t Valid prediction for snap_scaffold_26-snap.1887-T1 Valid prediction for snap_scaffold_26-snap.1904-T1 Valid prediction for snap_scaffold_26-snap.1888-T1 Valid prediction for GeneMark_model.100312_t Valid prediction for GlimmerHMM_glimmerT_57543-T1 Valid prediction for GeneMark_model.100303_t Valid prediction for snap_scaffold_26-snap.1892-T1 Valid prediction for GlimmerHMM_glimmerT_57518-T1 Valid prediction for GlimmerHMM_glimmerT_57519-T1 Valid prediction for Augustus_model.g38329.t1 Valid prediction for GeneMark_model.100292_t Valid prediction for snap_scaffold_26-snap.1912-T1 Valid prediction for GeneMark_model.100302_t Valid prediction for GeneMark_model.100294_t Valid prediction for GlimmerHMM_glimmerT_57521-T1 Valid prediction for Augustus_model.g38326.t1 Valid prediction for snap_scaffold_26-snap.1910-T1 Valid prediction for HiQ_model.g38332.t1 Valid prediction for snap_scaffold_26-snap.1905-T1 Valid prediction for GlimmerHMM_glimmerT_57526-T1 Valid prediction for GlimmerHMM_glimmerT_57523-T1 Valid prediction for GlimmerHMM_glimmerT_57538-T1 Valid prediction for GeneMark_model.100287_t Valid prediction for GlimmerHMM_glimmerT_57516-T1 Valid prediction for snap_scaffold_26-snap.1897-T1 Valid prediction for GeneMark_model.100286_t -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 GeneMark_model.100309_t Valid prediction for snap_scaffold_26-snap.1909-T1 Valid prediction for snap_scaffold_26-snap.1884-T1 Valid prediction for GlimmerHMM_glimmerT_57529-T1 Valid prediction for snap_scaffold_26-snap.1907-T1 Valid prediction for GeneMark_model.100306_t Valid prediction for snap_scaffold_26-snap.1900-T1 Valid prediction for GlimmerHMM_glimmerT_57537-T1 Valid prediction for GlimmerHMM_glimmerT_57539-T1 Valid prediction for snap_scaffold_26-snap.1889-T1 Valid prediction for snap_scaffold_26-snap.1902-T1 Valid prediction for GeneMark_model.100307_t Valid prediction for snap_scaffold_26-snap.1911-T1 Valid prediction for Augustus_model.g38333.t1 Valid prediction for Augustus_model.g38337.t1 Valid prediction for GeneMark_model.100299_t Valid prediction for GeneMark_model.100290_t Valid prediction for GeneMark_model.100301_t Valid prediction for GlimmerHMM_glimmerT_57517-T1 Valid prediction for GeneMark_model.100289_t Valid prediction for snap_scaffold_26-snap.1885-T1 Valid prediction for GeneMark_model.100311_t Valid prediction for GeneMark_model.100288_t Valid prediction for GlimmerHMM_glimmerT_57541-T1 Valid prediction for GeneMark_model.100295_t Valid prediction for snap_scaffold_26-snap.1906-T1 Valid prediction for snap_scaffold_26-snap.1913-T1 Valid prediction for GlimmerHMM_glimmerT_57528-T1 Valid prediction for snap_scaffold_26-snap.1898-T1 Valid prediction for snap_scaffold_26-snap.1901-T1 Valid prediction for Augustus_model.g38335.t1 Valid prediction for GlimmerHMM_glimmerT_57531-T1 Valid prediction for GeneMark_model.100291_t Valid prediction for GeneMark_model.100314_t Valid prediction for Augustus_model.g38331.t1 Valid prediction for GeneMark_model.100308_t Valid prediction for GlimmerHMM_glimmerT_57532-T1 Valid prediction for GlimmerHMM_glimmerT_57524-T1 Valid prediction for GeneMark_model.100313_t Valid prediction for Augustus_model.g38334.t1 Valid prediction for GlimmerHMM_glimmerT_57540-T1 Valid prediction for snap_scaffold_26-snap.1893-T1 Valid prediction for GeneMark_model.100304_t Valid prediction for GlimmerHMM_glimmerT_57535-T1 Valid prediction for GeneMark_model.100305_t Valid prediction for snap_scaffold_26-snap.1908-T1 Valid prediction for GeneMark_model.100284_t Valid prediction for GlimmerHMM_glimmerT_57544-T1 Valid prediction for GlimmerHMM_glimmerT_57542-T1 Valid prediction for Augustus_model.g38336.t1 Valid prediction for GeneMark_model.100298_t Valid prediction for GlimmerHMM_glimmerT_57530-T1 Valid prediction for Augustus_model.g38330.t1 Valid prediction for GlimmerHMM_glimmerT_57520-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 213549, rend_intergenic: 213036 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 216083, rend_intergenic: 214284 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 252506, rend_intergenic: 231448 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 253537, rend_intergenic: 253046 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 282823, rend_intergenic: 275359 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 290582, rend_intergenic: 286845 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 294691 -exon list size: 368 building trellis 0.3 0.5 0.8 1.1 1.4 1.6 1.9 2.2 2.4 2.7 3.0 3.2 3.5 3.8 4.1 4.3 4.6 4.9 5.1 5.4 5.7 5.9 6.2 6.5 6.8 7.0 7.3 7.6 7.8 8.1 8.4 8.6 8.9 9.2 9.5 9.7 10.0 10.3 10.5 10.8 11.1 11.4 11.6 11.9 12.2 12.4 12.7 13.0 13.2 13.5 13.8 14.1 14.3 14.6 14.9 15.1 15.4 15.7 15.9 16.2 16.5 16.8 17.0 17.3 17.6 17.8 18.1 18.4 18.6 18.9 19.2 19.5 19.7 20.0 20.3 20.5 20.8 21.1 21.4 21.6 21.9 22.2 22.4 22.7 23.0 23.2 23.5 23.8 24.1 24.3 24.6 24.9 25.1 25.4 25.7 25.9 26.2 26.5 26.8 27.0 27.3 27.6 27.8 28.1 28.4 28.6 28.9 29.2 29.5 29.7 30.0 30.3 30.5 30.8 31.1 31.4 31.6 31.9 32.2 32.4 32.7 33.0 33.2 33.5 33.8 34.1 34.3 34.6 34.9 35.1 35.4 35.7 35.9 36.2 36.5 36.8 37.0 37.3 37.6 37.8 38.1 38.4 38.6 38.9 39.2 39.5 39.7 40.0 40.3 40.5 40.8 41.1 41.4 41.6 41.9 42.2 42.4 42.7 43.0 43.2 43.5 43.8 44.1 44.3 44.6 44.9 45.1 45.4 45.7 45.9 46.2 46.5 46.8 47.0 47.3 47.6 47.8 48.1 48.4 48.6 48.9 49.2 49.5 49.7 50.0 50.3 50.5 50.8 51.1 51.4 51.6 51.9 52.2 52.4 52.7 53.0 53.2 53.5 53.8 54.1 54.3 54.6 54.9 55.1 55.4 55.7 55.9 56.2 56.5 56.8 57.0 57.3 57.6 57.8 58.1 58.4 58.6 58.9 59.2 59.5 59.7 60.0 60.3 60.5 60.8 61.1 61.4 61.6 61.9 62.2 62.4 62.7 63.0 63.2 63.5 63.8 64.1 64.3 64.6 64.9 65.1 65.4 65.7 65.9 66.2 66.5 66.8 67.0 67.3 67.6 67.8 68.1 68.4 68.6 68.9 69.2 69.5 69.7 70.0 70.3 70.5 70.8 71.1 71.4 71.6 71.9 72.2 72.4 72.7 73.0 73.2 73.5 73.8 74.1 74.3 74.6 74.9 75.1 75.4 75.7 75.9 76.2 76.5 76.8 77.0 77.3 77.6 77.8 78.1 78.4 78.6 78.9 79.2 79.5 79.7 80.0 80.3 80.5 80.8 81.1 81.4 81.6 81.9 82.2 82.4 82.7 83.0 83.2 83.5 83.8 84.1 84.3 84.6 84.9 85.1 85.4 85.7 85.9 86.2 86.5 86.8 87.0 87.3 87.6 87.8 88.1 88.4 88.6 88.9 89.2 89.5 89.7 90.0 90.3 90.5 90.8 91.1 91.4 91.6 91.9 92.2 92.4 92.7 93.0 93.2 93.5 93.8 94.1 94.3 94.6 94.9 95.1 95.4 95.7 95.9 96.2 96.5 96.8 97.0 97.3 97.6 97.8 98.1 98.4 98.6 98.9 99.2 99.5 99.7 -found 20 predictions from path traversal Error with prediction: snap lend_intergenic: 213549, rend_intergenic: 213036 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 216083, rend_intergenic: 214284 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 252506, rend_intergenic: 231448 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 253537, rend_intergenic: 253046 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 282823, rend_intergenic: 275359 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 290582, rend_intergenic: 286845 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. GOT 5prime partial gene. GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 11 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 101291 -exon list size: 55 building trellis 1.8 3.5 5.3 7.0 8.8 10.5 12.3 14.0 15.8 17.5 19.3 21.1 22.8 24.6 26.3 28.1 29.8 31.6 33.3 35.1 36.8 38.6 40.4 42.1 43.9 45.6 47.4 49.1 50.9 52.6 54.4 56.1 57.9 59.6 61.4 63.2 64.9 66.7 68.4 70.2 71.9 73.7 75.4 77.2 78.9 80.7 82.5 84.2 86.0 87.7 89.5 91.2 93.0 94.7 96.5 98.2 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 100125 -exon list size: 52 building trellis 1.9 3.7 5.6 7.4 9.3 11.1 13.0 14.8 16.7 18.5 20.4 22.2 24.1 25.9 27.8 29.6 31.5 33.3 35.2 37.0 38.9 40.7 42.6 44.4 46.3 48.1 50.0 51.9 53.7 55.6 57.4 59.3 61.1 63.0 64.8 66.7 68.5 70.4 72.2 74.1 75.9 77.8 79.6 81.5 83.3 85.2 87.0 88.9 90.7 92.6 94.4 96.3 98.1 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 78091 -exon list size: 37 building trellis 2.6 5.1 7.7 10.3 12.8 15.4 17.9 20.5 23.1 25.6 28.2 30.8 33.3 35.9 38.5 41.0 43.6 46.2 48.7 51.3 53.8 56.4 59.0 61.5 64.1 66.7 69.2 71.8 74.4 76.9 79.5 82.1 84.6 87.2 89.7 92.3 94.9 97.4 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 78056 -exon list size: 36 building trellis 2.6 5.3 7.9 10.5 13.2 15.8 18.4 21.1 23.7 26.3 28.9 31.6 34.2 36.8 39.5 42.1 44.7 47.4 50.0 52.6 55.3 57.9 60.5 63.2 65.8 68.4 71.1 73.7 76.3 78.9 81.6 84.2 86.8 89.5 92.1 94.7 97.4 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 21460 -exon list size: 4 building trellis 16.7 33.3 50.0 66.7 83.3 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 21425 -exon list size: 3 building trellis 20.0 40.0 60.0 80.0 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 18971 -exon list size: 1 building trellis 33.3 66.7 -found 1 predictions from path traversal -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 21467 - 78056 -exon list size: 31 building trellis 3.0 6.1 9.1 12.1 15.2 18.2 21.2 24.2 27.3 30.3 33.3 36.4 39.4 42.4 45.5 48.5 51.5 54.5 57.6 60.6 63.6 66.7 69.7 72.7 75.8 78.8 81.8 84.8 87.9 90.9 93.9 97.0 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 23380 - 78056 -exon list size: 24 building trellis 3.8 7.7 11.5 15.4 19.2 23.1 26.9 30.8 34.6 38.5 42.3 46.2 50.0 53.8 57.7 61.5 65.4 69.2 73.1 76.9 80.8 84.6 88.5 92.3 96.2 -found 1 predictions from path traversal -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 23380 - 49489 -exon list size: 5 building trellis 14.3 28.6 42.9 57.1 71.4 85.7 -found 1 predictions from path traversal -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 23380 - 41542 -exon list size: 2 building trellis 25.0 50.0 75.0 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 29813 - 41542 -exon list size: 1 building trellis 33.3 66.7 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 49631 - 78056 -exon list size: 16 building trellis 5.6 11.1 16.7 22.2 27.8 33.3 38.9 44.4 50.0 55.6 61.1 66.7 72.2 77.8 83.3 88.9 94.4 -found 1 predictions from path traversal -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 49631 - 77832 -exon list size: 12 building trellis 7.1 14.3 21.4 28.6 35.7 42.9 50.0 57.1 64.3 71.4 78.6 85.7 92.9 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 51189 - 77832 -exon list size: 9 building trellis 9.1 18.2 27.3 36.4 45.5 54.5 63.6 72.7 81.8 90.9 -found 1 predictions from path traversal -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 51707 - 77832 -exon list size: 5 building trellis 14.3 28.6 42.9 57.1 71.4 85.7 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 51707 - 65400 -exon list size: 3 building trellis 20.0 40.0 60.0 80.0 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 54595 - 65400 -exon list size: 1 building trellis 33.3 66.7 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 65472 - 77832 -exon list size: 1 building trellis 33.3 66.7 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 78110 - 100125 -exon list size: 13 building trellis 6.7 13.3 20.0 26.7 33.3 40.0 46.7 53.3 60.0 66.7 73.3 80.0 86.7 93.3 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 84721 - 100125 -exon list size: 11 building trellis 7.7 15.4 23.1 30.8 38.5 46.2 53.8 61.5 69.2 76.9 84.6 92.3 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support