-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_5785439-6061686

-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_40353-T1
Valid prediction for Augustus_model.g26882.t1
Valid prediction for Augustus_model.g26884.t1
Couldn't classify 58972, 59008
Couldn't classify 63677, 63826
Sorry, prediction pasa_asmbl_19439.p1 fails validation.
(GGG)	 AG	58972-59008	GT	AGG
(GTC)	 AG	61090-61187	GT	GGG
(ATG)	 AG	61693-61809	GT	GGG
(AGA)	 AG	62093-62247	GT	AGG
(TAT)	 AG	62367-62502	GT	AGG
(GAA)	 AG	63677-63826	GT	AGG
-recovered pasa_asmbl_19439.p1, initial, 61693, 61809
-recovered pasa_asmbl_19439.p1, internal, 58972, 59008
-recovered pasa_asmbl_19439.p1, internal, 61090, 61187
-recovered pasa_asmbl_19439.p1, internal, 61693, 61809
-recovered pasa_asmbl_19439.p1, internal, 62093, 62247
-recovered pasa_asmbl_19439.p1, internal, 62367, 62502
-recovered pasa_asmbl_19439.p1, internal, 63677, 63826
Valid prediction for GlimmerHMM_glimmerT_40381-T1
Valid prediction for snap_scaffold_17-snap.1213-T1
Valid prediction for GlimmerHMM_glimmerT_40359-T1
Valid prediction for snap_scaffold_17-snap.1194-T1
Valid prediction for snap_scaffold_17-snap.1210-T1
Valid prediction for GlimmerHMM_glimmerT_40384-T1
Valid prediction for CodingQuarry_transcript_21994-T1
Valid prediction for GlimmerHMM_glimmerT_40368-T1
Valid prediction for Augustus_model.g26892.t1
Valid prediction for snap_scaffold_17-snap.1216-T1
Valid prediction for snap_scaffold_17-snap.1191-T1
Valid prediction for snap_scaffold_17-snap.1212-T1
Valid prediction for snap_scaffold_17-snap.1188-T1
Valid prediction for snap_scaffold_17-snap.1198-T1
Valid prediction for GlimmerHMM_glimmerT_40363-T1
Valid prediction for snap_scaffold_17-snap.1192-T1
Valid prediction for snap_scaffold_17-snap.1201-T1
Valid prediction for pasa_asmbl_18831.p1
Valid prediction for snap_scaffold_17-snap.1196-T1
Valid prediction for snap_scaffold_17-snap.1185-T1
Valid prediction for snap_scaffold_17-snap.1222-T1
Couldn't classify 64857, 64949
Sorry, prediction pasa_asmbl_18830.p1 fails validation.
(GGC)	 CG	64857-64949	GT	GGG
(CCC)	 AG	66293-66418	GT	GGG
(ATT)	 AG	67577-67734	GT	CTG
(GAA)	 AG	68621-68756	GT	TGG
(GAG)	 AG	68951-69013	CA	AGC
-recovered pasa_asmbl_18830.p1, terminal, 68951, 69013
-recovered pasa_asmbl_18830.p1, internal, 66293, 66418
-recovered pasa_asmbl_18830.p1, internal, 67577, 67734
-recovered pasa_asmbl_18830.p1, internal, 68621, 68756
Valid prediction for HiQ_model.g26890.t1
Valid prediction for Augustus_model.g26886.t1
Valid prediction for GlimmerHMM_glimmerT_40375-T1
Valid prediction for snap_scaffold_17-snap.1200-T1
Valid prediction for snap_scaffold_17-snap.1221-T1
Valid prediction for Augustus_model.g26894.t1
Valid prediction for Augustus_model.g26887.t1
Valid prediction for snap_scaffold_17-snap.1217-T1
Valid prediction for GlimmerHMM_glimmerT_40377-T1
Couldn't classify 211198, 211372
Couldn't classify 215388, 215695
Sorry, prediction pasa_asmbl_18838.p1 fails validation.
(GGC)	 CA	211198-211372	GT	AGG
(TTT)	 AG	211526-211606	GT	TGG
(AGA)	 AG	211718-212171	GC	AGG
(GAG)	 AG	212226-213067	GT	AGG
(CTG)	 AG	215388-215695	AA	CCA
-recovered pasa_asmbl_18838.p1, internal, 211526, 211606
-recovered pasa_asmbl_18838.p1, internal, 211718, 212171
-recovered pasa_asmbl_18838.p1, internal, 212226, 213067
Valid prediction for snap_scaffold_17-snap.1209-T1
Valid prediction for snap_scaffold_17-snap.1204-T1
Valid prediction for GlimmerHMM_glimmerT_40382-T1
Valid prediction for GlimmerHMM_glimmerT_40386-T1
Valid prediction for GlimmerHMM_glimmerT_40361-T1
Valid prediction for GlimmerHMM_glimmerT_40358-T1
Valid prediction for GlimmerHMM_glimmerT_40373-T1
Valid prediction for Augustus_model.g26885.t1
Valid prediction for Augustus_model.g26893.t1
Valid prediction for GlimmerHMM_glimmerT_40362-T1
Valid prediction for snap_scaffold_17-snap.1187-T1
Valid prediction for snap_scaffold_17-snap.1202-T1
Valid prediction for CodingQuarry_transcript_21993-T1
Couldn't classify 215762, 215952
Sorry, prediction pasa_asmbl_18839.p1 fails validation.
(CCC)	 CA	215762-215952	GT	CTG
(ACC)	 AG	216318-216583	GT	CAG
(GCG)	 AG	216719-216893	GT	CGG
(GCG)	 AG	217084-217139	GT	AGG
(TGA)	 AG	217719-217777	GT	AGG
(CTG)	 AG	218015-218152	GT	AGG
(GCG)	 AG	218526-218602	GT	AGG
(GTT)	 AG	218699-218714	CT	AGC
-recovered pasa_asmbl_18839.p1, terminal, 218699, 218714
-recovered pasa_asmbl_18839.p1, internal, 216318, 216583
-recovered pasa_asmbl_18839.p1, internal, 216719, 216893
-recovered pasa_asmbl_18839.p1, internal, 217084, 217139
-recovered pasa_asmbl_18839.p1, internal, 217719, 217777
-recovered pasa_asmbl_18839.p1, internal, 218015, 218152
-recovered pasa_asmbl_18839.p1, internal, 218526, 218602
Valid prediction for snap_scaffold_17-snap.1214-T1
Valid prediction for GlimmerHMM_glimmerT_40378-T1
Valid prediction for snap_scaffold_17-snap.1197-T1
Valid prediction for snap_scaffold_17-snap.1190-T1
Valid prediction for GlimmerHMM_glimmerT_40366-T1
Valid prediction for Augustus_model.g26891.t1
Valid prediction for snap_scaffold_17-snap.1195-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_40383-T1
Valid prediction for snap_scaffold_17-snap.1203-T1
Valid prediction for CodingQuarry_transcript_21992-T1
Valid prediction for GlimmerHMM_glimmerT_40356-T1
Valid prediction for GlimmerHMM_glimmerT_40372-T1
Valid prediction for snap_scaffold_17-snap.1189-T1
Valid prediction for pasa_asmbl_17956.p1
Valid prediction for GlimmerHMM_glimmerT_40367-T1
Valid prediction for Augustus_model.g26896.t1
Valid prediction for GlimmerHMM_glimmerT_40385-T1
Valid prediction for GlimmerHMM_glimmerT_40360-T1
Valid prediction for Augustus_model.g26897.t1
Valid prediction for GlimmerHMM_glimmerT_40354-T1
Valid prediction for snap_scaffold_17-snap.1220-T1
Valid prediction for GlimmerHMM_glimmerT_40380-T1
Valid prediction for snap_scaffold_17-snap.1205-T1
Valid prediction for snap_scaffold_17-snap.1193-T1
Valid prediction for HiQ_model.g26895.t1
Valid prediction for GlimmerHMM_glimmerT_40365-T1
Valid prediction for snap_scaffold_17-snap.1215-T1
Valid prediction for snap_scaffold_17-snap.1219-T1
Valid prediction for Augustus_model.g26883.t1
Valid prediction for snap_scaffold_17-snap.1206-T1
Valid prediction for snap_scaffold_17-snap.1208-T1
Valid prediction for snap_scaffold_17-snap.1218-T1
Valid prediction for GlimmerHMM_glimmerT_40376-T1
Valid prediction for GlimmerHMM_glimmerT_40355-T1
Valid prediction for snap_scaffold_17-snap.1211-T1
Valid prediction for Augustus_model.g26888.t1
Valid prediction for GlimmerHMM_glimmerT_40370-T1
Valid prediction for GlimmerHMM_glimmerT_40357-T1
Valid prediction for Augustus_model.g26889.t1
Valid prediction for GlimmerHMM_glimmerT_40379-T1
Valid prediction for GlimmerHMM_glimmerT_40374-T1
Valid prediction for GlimmerHMM_glimmerT_40364-T1
Valid prediction for snap_scaffold_17-snap.1186-T1
Valid prediction for GlimmerHMM_glimmerT_40371-T1
Valid prediction for snap_scaffold_17-snap.1207-T1
Valid prediction for snap_scaffold_17-snap.1199-T1
Valid prediction for GlimmerHMM_glimmerT_40369-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 18753, rend_intergenic: 14346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26341, rend_intergenic: 21220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39744, rend_intergenic: 38269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65015, rend_intergenic: 58364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171295, rend_intergenic: 168677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194616, rend_intergenic: 194230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220047, rend_intergenic: 208709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 276248
-exon list size: 337


building trellis

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8.0    
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8.8    
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17.4    
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18.6    
18.9    
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22.7    
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25.4    
25.7    
26.0    
26.3    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
29.2    
29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.4    
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33.0    
33.3    
33.6    
33.9    
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34.8    
35.1    
35.4    
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36.6    
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45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.5    
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48.1    
48.4    
48.7    
49.0    
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49.6    
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50.4    
50.7    
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51.6    
51.9    
52.2    
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52.8    
53.1    
53.4    
53.7    
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54.6    
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64.0    
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66.4    
66.7    
67.0    
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67.6    
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72.0    
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72.6    
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77.6    
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81.1    
81.4    
81.7    
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82.6    
82.9    
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83.5    
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84.1    
84.4    
84.7    
85.0    
85.3    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 18753, rend_intergenic: 14346  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26341, rend_intergenic: 21220  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39744, rend_intergenic: 38269  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65015, rend_intergenic: 58364  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171295, rend_intergenic: 168677  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194616, rend_intergenic: 194230  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 220047, rend_intergenic: 208709  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support