-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_10677381-10875925 -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_15447-T1 Valid prediction for snap_scaffold_6-snap.2318-T1 Valid prediction for snap_scaffold_6-snap.2308-T1 Valid prediction for GlimmerHMM_glimmerT_15444-T1 Valid prediction for snap_scaffold_6-snap.2310-T1 Valid prediction for Augustus_model.g10272.t1 Valid prediction for snap_scaffold_6-snap.2326-T1 Valid prediction for snap_scaffold_6-snap.2332-T1 Valid prediction for snap_scaffold_6-snap.2311-T1 Valid prediction for snap_scaffold_6-snap.2304-T1 Valid prediction for snap_scaffold_6-snap.2330-T1 Valid prediction for GlimmerHMM_glimmerT_15445-T1 Valid prediction for snap_scaffold_6-snap.2331-T1 Valid prediction for GlimmerHMM_glimmerT_15435-T1 Valid prediction for GlimmerHMM_glimmerT_15428-T1 Valid prediction for snap_scaffold_6-snap.2323-T1 Valid prediction for GlimmerHMM_glimmerT_15425-T1 Valid prediction for GlimmerHMM_glimmerT_15430-T1 Valid prediction for snap_scaffold_6-snap.2317-T1 Valid prediction for GlimmerHMM_glimmerT_15432-T1 Valid prediction for snap_scaffold_6-snap.2329-T1 Valid prediction for Augustus_model.g10273.t1 Valid prediction for CodingQuarry_transcript_55212-T1 Valid prediction for GlimmerHMM_glimmerT_15424-T1 Valid prediction for snap_scaffold_6-snap.2312-T1 Valid prediction for snap_scaffold_6-snap.2303-T1 Valid prediction for snap_scaffold_6-snap.2315-T1 Valid prediction for Augustus_model.g10278.t1 Valid prediction for snap_scaffold_6-snap.2314-T1 Valid prediction for snap_scaffold_6-snap.2321-T1 Valid prediction for snap_scaffold_6-snap.2301-T1 Valid prediction for snap_scaffold_6-snap.2307-T1 Valid prediction for snap_scaffold_6-snap.2328-T1 Valid prediction for snap_scaffold_6-snap.2302-T1 Valid prediction for Augustus_model.g10275.t1 Valid prediction for snap_scaffold_6-snap.2305-T1 Valid prediction for Augustus_model.g10280.t1 Valid prediction for CodingQuarry_transcript_55213-T1 Valid prediction for GlimmerHMM_glimmerT_15426-T1 Valid prediction for GlimmerHMM_glimmerT_15446-T1 Valid prediction for snap_scaffold_6-snap.2327-T1 Valid prediction for GlimmerHMM_glimmerT_15433-T1 Valid prediction for HiQ_model.g10270.t1 Valid prediction for pasa_asmbl_47290.p1 Valid prediction for HiQ_model.g10279.t1 Valid prediction for GlimmerHMM_glimmerT_15438-T1 Couldn't classify 69285, 69376 Sorry, prediction pasa_asmbl_47292.p1 fails validation. (CAA) GA 69285-69376 GT AGG (AAT) AG 71335-71450 GT TGG (CCA) AG 72429-72609 GT GAG (GTG) AG 74626-74735 GT GGG (GTA) AG 74945-75026 GT GGG (ATT) AG 75362-75421 GT AGG (GGT) AG 75548-75806 TG AGT -recovered pasa_asmbl_47292.p1, terminal, 75548, 75806 -recovered pasa_asmbl_47292.p1, internal, 71335, 71450 -recovered pasa_asmbl_47292.p1, internal, 72429, 72609 -recovered pasa_asmbl_47292.p1, internal, 74626, 74735 -recovered pasa_asmbl_47292.p1, internal, 74945, 75026 -recovered pasa_asmbl_47292.p1, internal, 75362, 75421 Valid prediction for CodingQuarry_transcript_55210-T1 Valid prediction for pasa_asmbl_47299.p1 Valid prediction for GlimmerHMM_glimmerT_15439-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_6-snap.2309-T1 Sorry, intron length (4) is less than minimum required (10) Valid prediction for Augustus_model.g10276.t1 Valid prediction for GlimmerHMM_glimmerT_15427-T1 Valid prediction for Augustus_model.g10274.t1 Valid prediction for GlimmerHMM_glimmerT_15429-T1 Valid prediction for snap_scaffold_6-snap.2320-T1 Valid prediction for GlimmerHMM_glimmerT_15431-T1 Valid prediction for Augustus_model.g10277.t1 Valid prediction for Augustus_model.g10271.t1 Valid prediction for snap_scaffold_6-snap.2319-T1 Sorry, intron length (6) is less than minimum required (10) Couldn't classify 46246, 46480 Couldn't classify 47612, 47758 Sorry, prediction pasa_asmbl_48711.p1 fails validation. (CCA) CA 46246-46480 GT AGG (CTT) AG 46939-47114 GT CCG (GTG) AG 47612-47758 GT AGG -recovered pasa_asmbl_48711.p1, internal, 46939, 47114 -recovered pasa_asmbl_48711.p1, internal, 47612, 47758 Valid prediction for GlimmerHMM_glimmerT_15441-T1 Couldn't classify 27672, 27796 Couldn't classify 31091, 31186 Sorry, prediction pasa_asmbl_48718.p1 fails validation. (CTT) CA 27672-27796 GT GGG (GCC) AG 29677-29755 GT CGG (GTG) AG 30356-30505 GT AGG (GCC) AG 31091-31186 GA CAG -recovered pasa_asmbl_48718.p1, internal, 29677, 29755 -recovered pasa_asmbl_48718.p1, internal, 30356, 30505 Valid prediction for GlimmerHMM_glimmerT_15443-T1 Couldn't classify 36096, 36164 Sorry, prediction pasa_asmbl_48715.p1 fails validation. (CTG) AG 36096-36164 GT TGG (ATC) AG 38274-38333 GT TGG (AAA) AG 38999-39035 GT AGG (AGT) AG 39218-39372 AC AGA -recovered pasa_asmbl_48715.p1, terminal, 39218, 39372 -recovered pasa_asmbl_48715.p1, internal, 36096, 36164 -recovered pasa_asmbl_48715.p1, internal, 38274, 38333 -recovered pasa_asmbl_48715.p1, internal, 38999, 39035 Valid prediction for CodingQuarry_transcript_55211-T1 Valid prediction for snap_scaffold_6-snap.2322-T1 Valid prediction for GlimmerHMM_glimmerT_15437-T1 Valid prediction for GlimmerHMM_glimmerT_15440-T1 Couldn't classify 52358, 52464 Sorry, prediction pasa_asmbl_48710.p1 fails validation. (GAC) TG 52358-52464 GT GGG (TGA) AG 52576-52685 GT CGG (GAT) AG 54583-54715 GT GAG (GAG) AG 55176-55341 GT AGG (GTG) AG 56036-56245 GT GGG (TTG) AG 56909-57020 GT AGG (AGG) AG 57202-57422 AG AGA -recovered pasa_asmbl_48710.p1, terminal, 57202, 57422 -recovered pasa_asmbl_48710.p1, internal, 52576, 52685 -recovered pasa_asmbl_48710.p1, internal, 54583, 54715 -recovered pasa_asmbl_48710.p1, internal, 55176, 55341 -recovered pasa_asmbl_48710.p1, internal, 56036, 56245 -recovered pasa_asmbl_48710.p1, internal, 56909, 57020 Valid prediction for GlimmerHMM_glimmerT_15434-T1 Valid prediction for snap_scaffold_6-snap.2316-T1 Valid prediction for snap_scaffold_6-snap.2300-T1 Valid prediction for snap_scaffold_6-snap.2324-T1 Valid prediction for snap_scaffold_6-snap.2313-T1 Valid prediction for GlimmerHMM_glimmerT_15442-T1 Valid prediction for snap_scaffold_6-snap.2325-T1 Valid prediction for GlimmerHMM_glimmerT_15436-T1 Valid prediction for snap_scaffold_6-snap.2306-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 56620, rend_intergenic: 50872 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 71579, rend_intergenic: 66108 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 82731, rend_intergenic: 81178 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93731, rend_intergenic: 83193 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 115022, rend_intergenic: 94135 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 119822, rend_intergenic: 115166 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 138030, rend_intergenic: 122346 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 144420, rend_intergenic: 140652 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 152726, rend_intergenic: 144709 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 174245, rend_intergenic: 172166 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 198545 -exon list size: 321 building trellis 0.3 0.6 0.9 1.2 1.5 1.9 2.2 2.5 2.8 3.1 3.4 3.7 4.0 4.3 4.6 5.0 5.3 5.6 5.9 6.2 6.5 6.8 7.1 7.4 7.7 8.0 8.4 8.7 9.0 9.3 9.6 9.9 10.2 10.5 10.8 11.1 11.5 11.8 12.1 12.4 12.7 13.0 13.3 13.6 13.9 14.2 14.6 14.9 15.2 15.5 15.8 16.1 16.4 16.7 17.0 17.3 17.6 18.0 18.3 18.6 18.9 19.2 19.5 19.8 20.1 20.4 20.7 21.1 21.4 21.7 22.0 22.3 22.6 22.9 23.2 23.5 23.8 24.1 24.5 24.8 25.1 25.4 25.7 26.0 26.3 26.6 26.9 27.2 27.6 27.9 28.2 28.5 28.8 29.1 29.4 29.7 30.0 30.3 30.7 31.0 31.3 31.6 31.9 32.2 32.5 32.8 33.1 33.4 33.7 34.1 34.4 34.7 35.0 35.3 35.6 35.9 36.2 36.5 36.8 37.2 37.5 37.8 38.1 38.4 38.7 39.0 39.3 39.6 39.9 40.2 40.6 40.9 41.2 41.5 41.8 42.1 42.4 42.7 43.0 43.3 43.7 44.0 44.3 44.6 44.9 45.2 45.5 45.8 46.1 46.4 46.7 47.1 47.4 47.7 48.0 48.3 48.6 48.9 49.2 49.5 49.8 50.2 50.5 50.8 51.1 51.4 51.7 52.0 52.3 52.6 52.9 53.3 53.6 53.9 54.2 54.5 54.8 55.1 55.4 55.7 56.0 56.3 56.7 57.0 57.3 57.6 57.9 58.2 58.5 58.8 59.1 59.4 59.8 60.1 60.4 60.7 61.0 61.3 61.6 61.9 62.2 62.5 62.8 63.2 63.5 63.8 64.1 64.4 64.7 65.0 65.3 65.6 65.9 66.3 66.6 66.9 67.2 67.5 67.8 68.1 68.4 68.7 69.0 69.3 69.7 70.0 70.3 70.6 70.9 71.2 71.5 71.8 72.1 72.4 72.8 73.1 73.4 73.7 74.0 74.3 74.6 74.9 75.2 75.5 75.9 76.2 76.5 76.8 77.1 77.4 77.7 78.0 78.3 78.6 78.9 79.3 79.6 79.9 80.2 80.5 80.8 81.1 81.4 81.7 82.0 82.4 82.7 83.0 83.3 83.6 83.9 84.2 84.5 84.8 85.1 85.4 85.8 86.1 86.4 86.7 87.0 87.3 87.6 87.9 88.2 88.5 88.9 89.2 89.5 89.8 90.1 90.4 90.7 91.0 91.3 91.6 92.0 92.3 92.6 92.9 93.2 93.5 93.8 94.1 94.4 94.7 95.0 95.4 95.7 96.0 96.3 96.6 96.9 97.2 97.5 97.8 98.1 98.5 98.8 99.1 99.4 99.7 -found 22 predictions from path traversal Error with prediction: snap lend_intergenic: 56620, rend_intergenic: 50872 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 71579, rend_intergenic: 66108 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 82731, rend_intergenic: 81178 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 93731, rend_intergenic: 83193 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 115022, rend_intergenic: 94135 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 119822, rend_intergenic: 115166 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 138030, rend_intergenic: 122346 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 144420, rend_intergenic: 140652 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 152726, rend_intergenic: 144709 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 174245, rend_intergenic: 172166 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 12 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 34492 -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 3 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 1 - 11759 -exon list size: 4 building trellis 16.7 33.3 50.0 66.7 83.3 -found 1 predictions from path traversal -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support