-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_112 -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 1337, 1443 Sorry, prediction GeneMark_model.106600_t fails validation. (GAG) AG 1337-1443 GT GGG (AAG) AG 1639-1662 GT GAG (GGG) AG 1787-1795 GT CGG (TTG) AG 1922-1993 GT GGG (GCT) AG 2048-2216 CT AAC -recovered GeneMark_model.106600_t, terminal, 2048, 2216 -recovered GeneMark_model.106600_t, internal, 1337, 1443 -recovered GeneMark_model.106600_t, internal, 1639, 1662 -recovered GeneMark_model.106600_t, internal, 1787, 1795 -recovered GeneMark_model.106600_t, internal, 1922, 1993 Valid prediction for GeneMark_model.106602_t Couldn't classify 14055, 14384 Sorry, prediction snap_scaffold_112-snap.5-T1 fails validation. (ATG) AG 11043-11226 GT GAG (GGG) AG 12091-12177 GT AGG (TTG) AG 13103-13287 GT GGG (GGA) AG 14055-14384 GT AAG -recovered snap_scaffold_112-snap.5-T1, initial, 11043, 11226 -recovered snap_scaffold_112-snap.5-T1, internal, 11043, 11226 -recovered snap_scaffold_112-snap.5-T1, internal, 12091, 12177 -recovered snap_scaffold_112-snap.5-T1, internal, 13103, 13287 -recovered snap_scaffold_112-snap.5-T1, internal, 14055, 14384 Valid prediction for snap_scaffold_112-snap.4-T1 Valid prediction for snap_scaffold_112-snap.1-T1 Valid prediction for GeneMark_model.106603_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: -)Couldn't classify 680, 936 Sorry, prediction snap_scaffold_112-snap.3-T1 fails validation. (AGA) AG 680-936 GT ATG (GGC) AG 1776-1895 GT AGG (GAA) AG 2340-2356 GT AGG (TAG) AG 5311-5501 GT TGG (AGG) AG 5840-5922 CA GAC -recovered snap_scaffold_112-snap.3-T1, terminal, 5840, 5922 -recovered snap_scaffold_112-snap.3-T1, internal, 680, 936 -recovered snap_scaffold_112-snap.3-T1, internal, 1776, 1895 -recovered snap_scaffold_112-snap.3-T1, internal, 2340, 2356 -recovered snap_scaffold_112-snap.3-T1, internal, 5311, 5501 Couldn't classify 680, 936 Sorry, prediction GlimmerHMM_glimmerT_61312-T1 fails validation. (AGA) AG 680-936 GT ATG (GGC) AG 1776-1895 GT AGG (TTC) AG 5459-5555 GT AGG (AGA) AG 9301-9620 CC AAC -recovered GlimmerHMM_glimmerT_61312-T1, terminal, 9301, 9620 -recovered GlimmerHMM_glimmerT_61312-T1, internal, 680, 936 -recovered GlimmerHMM_glimmerT_61312-T1, internal, 1776, 1895 -recovered GlimmerHMM_glimmerT_61312-T1, internal, 5459, 5555 Couldn't classify 680, 926 Sorry, prediction GeneMark_model.106604_t fails validation. (AGA) AG 680-926 GT GAG (CAT) AG 1802-1895 GT AGG (GGA) AG 3039-3049 GT AGG (TGA) AG 3076-3130 GG AGG -recovered GeneMark_model.106604_t, terminal, 3076, 3130 -recovered GeneMark_model.106604_t, internal, 680, 926 -recovered GeneMark_model.106604_t, internal, 1802, 1895 -recovered GeneMark_model.106604_t, internal, 3039, 3049 Couldn't classify 680, 936 Sorry, prediction Augustus_model.g40786.t1 fails validation. (AGA) AG 680-936 GT ATG (GGC) AG 1776-1895 GT AGG (ACC) AG 3628-3642 CT GAC -recovered Augustus_model.g40786.t1, terminal, 3628, 3642 -recovered Augustus_model.g40786.t1, internal, 680, 936 -recovered Augustus_model.g40786.t1, internal, 1776, 1895 Couldn't classify 9309, 9557 Couldn't classify 11221, 11340 Sorry, prediction pasa_asmbl_7374.p1 fails validation. (GGG) CT 9309-9557 GT ATG (GGC) AG 11221-11340 GT AGG -recovered pasa_asmbl_7374.p1, internal, 11221, 11340 Valid prediction for GeneMark_model.106601_t Couldn't classify 679, 936 Couldn't classify 1776, 1895 Sorry, prediction pasa_asmbl_7375.p1 fails validation. (GAG) CA 679-936 GT ATG (GGC) AG 1776-1895 GT AGG -recovered pasa_asmbl_7375.p1, internal, 1776, 1895 Valid prediction for Augustus_model.g40785.t1 Couldn't classify 11221, 11340 Sorry, prediction snap_scaffold_112-snap.2-T1 fails validation. (ATG) AC 7530-7578 GT AGG (AGA) AG 9301-9557 GT ATG (GGC) AG 11221-11340 GT AGG -recovered snap_scaffold_112-snap.2-T1, initial, 7530, 7578 -recovered snap_scaffold_112-snap.2-T1, internal, 9301, 9557 -recovered snap_scaffold_112-snap.2-T1, internal, 11221, 11340 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8054, rend_intergenic: 3624 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 14284, rend_intergenic: 9051 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 14963 -exon list size: 88 building trellis 1.1 2.2 3.3 4.4 5.6 6.7 7.8 8.9 10.0 11.1 12.2 13.3 14.4 15.6 16.7 17.8 18.9 20.0 21.1 22.2 23.3 24.4 25.6 26.7 27.8 28.9 30.0 31.1 32.2 33.3 34.4 35.6 36.7 37.8 38.9 40.0 41.1 42.2 43.3 44.4 45.6 46.7 47.8 48.9 50.0 51.1 52.2 53.3 54.4 55.6 56.7 57.8 58.9 60.0 61.1 62.2 63.3 64.4 65.6 66.7 67.8 68.9 70.0 71.1 72.2 73.3 74.4 75.6 76.7 77.8 78.9 80.0 81.1 82.2 83.3 84.4 85.6 86.7 87.8 88.9 90.0 91.1 92.2 93.3 94.4 95.6 96.7 97.8 98.9 -found 4 predictions from path traversal Error with prediction: snap lend_intergenic: 8054, rend_intergenic: 3624 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 14284, rend_intergenic: 9051 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 2 predictions persist after filtering for low support