-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_4151000-4366072

-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_11-snap.1048-T1
Valid prediction for Augustus_model.g17840.t1
Valid prediction for GlimmerHMM_glimmerT_26961-T1
Valid prediction for snap_scaffold_11-snap.1063-T1
Valid prediction for snap_scaffold_11-snap.1042-T1
Valid prediction for snap_scaffold_11-snap.1041-T1
Valid prediction for GlimmerHMM_glimmerT_26959-T1
Valid prediction for GlimmerHMM_glimmerT_26960-T1
Valid prediction for snap_scaffold_11-snap.1028-T1
Valid prediction for snap_scaffold_11-snap.1017-T1
Valid prediction for Augustus_model.g17836.t1
Valid prediction for snap_scaffold_11-snap.1020-T1
Valid prediction for snap_scaffold_11-snap.1050-T1
Valid prediction for Augustus_model.g17824.t1
Valid prediction for snap_scaffold_11-snap.1053-T1
Valid prediction for snap_scaffold_11-snap.1047-T1
Valid prediction for snap_scaffold_11-snap.1025-T1
Valid prediction for Augustus_model.g17828.t1
Valid prediction for snap_scaffold_11-snap.1029-T1
Valid prediction for snap_scaffold_11-snap.1023-T1
Valid prediction for Augustus_model.g17829.t1
Valid prediction for GlimmerHMM_glimmerT_26967-T1
Valid prediction for snap_scaffold_11-snap.1037-T1
Valid prediction for GlimmerHMM_glimmerT_26964-T1
Valid prediction for snap_scaffold_11-snap.1030-T1
Valid prediction for snap_scaffold_11-snap.1046-T1
Valid prediction for Augustus_model.g17834.t1
Valid prediction for snap_scaffold_11-snap.1032-T1
Valid prediction for GlimmerHMM_glimmerT_26954-T1
Valid prediction for snap_scaffold_11-snap.1051-T1
Valid prediction for snap_scaffold_11-snap.1049-T1
Valid prediction for GlimmerHMM_glimmerT_26955-T1
Valid prediction for Augustus_model.g17830.t1
Valid prediction for GlimmerHMM_glimmerT_26981-T1
Valid prediction for GlimmerHMM_glimmerT_26956-T1
Valid prediction for snap_scaffold_11-snap.1058-T1
Valid prediction for snap_scaffold_11-snap.1019-T1
Valid prediction for snap_scaffold_11-snap.1040-T1
Valid prediction for snap_scaffold_11-snap.1057-T1
Valid prediction for GlimmerHMM_glimmerT_26969-T1
Valid prediction for GlimmerHMM_glimmerT_26968-T1
Valid prediction for snap_scaffold_11-snap.1027-T1
Valid prediction for GlimmerHMM_glimmerT_26971-T1
Valid prediction for snap_scaffold_11-snap.1039-T1
Valid prediction for snap_scaffold_11-snap.1061-T1
Valid prediction for snap_scaffold_11-snap.1059-T1
Valid prediction for Augustus_model.g17844.t1
Valid prediction for GlimmerHMM_glimmerT_26976-T1
Valid prediction for snap_scaffold_11-snap.1022-T1
Valid prediction for snap_scaffold_11-snap.1044-T1
Valid prediction for GlimmerHMM_glimmerT_26966-T1
Valid prediction for snap_scaffold_11-snap.1052-T1
Valid prediction for snap_scaffold_11-snap.1035-T1
Valid prediction for snap_scaffold_11-snap.1033-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_11-snap.1031-T1
Valid prediction for HiQ_model.g17835.t1
Valid prediction for Augustus_model.g17841.t1
Valid prediction for snap_scaffold_11-snap.1038-T1
Valid prediction for snap_scaffold_11-snap.1024-T1
Valid prediction for GlimmerHMM_glimmerT_26970-T1
Valid prediction for CodingQuarry_transcript_8037-T1
Valid prediction for CodingQuarry_transcript_8036-T1
Valid prediction for snap_scaffold_11-snap.1043-T1
Valid prediction for snap_scaffold_11-snap.1036-T1
Valid prediction for GlimmerHMM_glimmerT_26962-T1
Valid prediction for pasa_asmbl_6593.p1
Valid prediction for snap_scaffold_11-snap.1016-T1
Valid prediction for GlimmerHMM_glimmerT_26963-T1
Couldn't classify 68628, 68717
Couldn't classify 74572, 74705
Sorry, prediction pasa_asmbl_6595.p1 fails validation.
(GAT)	 AG	68628-68717	GT	AGG
(GAA)	 AG	69911-69982	GT	CTG
(AGG)	 AG	70159-70253	GT	AGG
(GTT)	 AG	70333-70552	GT	AGG
(GTG)	 AG	70702-70815	GT	AGG
(ACT)	 AG	70925-71035	GT	AGG
(TCC)	 AG	71362-71465	GT	CGG
(GCA)	 AG	71563-71629	GT	CCG
(GTC)	 AG	71741-71858	GT	TCG
(ACA)	 AG	72869-73007	GT	ATG
(GCT)	 AG	73883-73941	GT	AGG
(AGC)	 AG	74572-74705	GC	AGG
-recovered pasa_asmbl_6595.p1, internal, 68628, 68717
-recovered pasa_asmbl_6595.p1, internal, 69911, 69982
-recovered pasa_asmbl_6595.p1, internal, 70159, 70253
-recovered pasa_asmbl_6595.p1, internal, 70333, 70552
-recovered pasa_asmbl_6595.p1, internal, 70702, 70815
-recovered pasa_asmbl_6595.p1, internal, 70925, 71035
-recovered pasa_asmbl_6595.p1, internal, 71362, 71465
-recovered pasa_asmbl_6595.p1, internal, 71563, 71629
-recovered pasa_asmbl_6595.p1, internal, 71741, 71858
-recovered pasa_asmbl_6595.p1, internal, 72869, 73007
-recovered pasa_asmbl_6595.p1, internal, 73883, 73941
-recovered pasa_asmbl_6595.p1, internal, 74572, 74705
Valid prediction for CodingQuarry_transcript_8035-T1
Valid prediction for GlimmerHMM_glimmerT_26958-T1
Valid prediction for GlimmerHMM_glimmerT_26974-T1
Valid prediction for snap_scaffold_11-snap.1034-T1
Valid prediction for GlimmerHMM_glimmerT_26973-T1
Valid prediction for GlimmerHMM_glimmerT_26975-T1
Valid prediction for GlimmerHMM_glimmerT_26979-T1
Couldn't classify 16621, 16911
Couldn't classify 23775, 23836
Sorry, prediction pasa_asmbl_6601.p1 fails validation.
(NNN)	 NN	16621-16911	GT	AGG
(ACC)	 AG	19862-20009	GT	TGG
(AGA)	 AG	21378-21497	GT	TGG
(AGA)	 AG	23775-23836	GT	AGG
-recovered pasa_asmbl_6601.p1, internal, 19862, 20009
-recovered pasa_asmbl_6601.p1, internal, 21378, 21497
-recovered pasa_asmbl_6601.p1, internal, 23775, 23836
Valid prediction for GlimmerHMM_glimmerT_26977-T1
Valid prediction for Augustus_model.g17842.t1
Valid prediction for snap_scaffold_11-snap.1026-T1
Valid prediction for GlimmerHMM_glimmerT_26972-T1
Valid prediction for pasa_asmbl_6594.p1
Valid prediction for Augustus_model.g17827.t1
Valid prediction for snap_scaffold_11-snap.1021-T1
Valid prediction for Augustus_model.g17839.t1
Valid prediction for snap_scaffold_11-snap.1054-T1
Valid prediction for Augustus_model.g17831.t1
Valid prediction for snap_scaffold_11-snap.1062-T1
Valid prediction for Augustus_model.g17825.t1
Valid prediction for snap_scaffold_11-snap.1056-T1
Valid prediction for Augustus_model.g17826.t1
Valid prediction for Augustus_model.g17843.t1
Valid prediction for GlimmerHMM_glimmerT_26978-T1
Valid prediction for Augustus_model.g17837.t1
Valid prediction for Augustus_model.g17833.t1
Valid prediction for GlimmerHMM_glimmerT_26965-T1
Valid prediction for snap_scaffold_11-snap.1018-T1
Valid prediction for GlimmerHMM_glimmerT_26980-T1
Valid prediction for snap_scaffold_11-snap.1045-T1
Valid prediction for snap_scaffold_11-snap.1060-T1
Valid prediction for snap_scaffold_11-snap.1055-T1
Valid prediction for Augustus_model.g17832.t1
Valid prediction for Augustus_model.g17838.t1
Valid prediction for GlimmerHMM_glimmerT_26957-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11594, rend_intergenic: 11042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25173, rend_intergenic: 12773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30350, rend_intergenic: 26808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32840, rend_intergenic: 31404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45308, rend_intergenic: 42506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62357, rend_intergenic: 45786  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76730, rend_intergenic: 63102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84676, rend_intergenic: 77046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87095, rend_intergenic: 85367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88023, rend_intergenic: 87583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96578, rend_intergenic: 88063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102531, rend_intergenic: 98306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112184, rend_intergenic: 104386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161132, rend_intergenic: 128356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187184, rend_intergenic: 174926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198060, rend_intergenic: 188523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200555, rend_intergenic: 198177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 215073
-exon list size: 467


building trellis

0.2    
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23.0    
23.2    
23.5    
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23.9    
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24.9    
25.2    
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25.6    
25.8    
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26.9    
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27.9    
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28.6    
28.8    
29.0    
29.2    
29.4    
29.6    
29.9    
30.1    
30.3    
30.5    
30.7    
30.9    
31.1    
31.3    
31.6    
31.8    
32.0    
32.2    
32.4    
32.6    
32.8    
33.0    
33.3    
33.5    
33.7    
33.9    
34.1    
34.3    
34.5    
34.8    
35.0    
35.2    
35.4    
35.6    
35.8    
36.0    
36.2    
36.5    
36.7    
36.9    
37.1    
37.3    
37.5    
37.7    
38.0    
38.2    
38.4    
38.6    
38.8    
39.0    
39.2    
39.4    
39.7    
39.9    
40.1    
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41.2    
41.4    
41.6    
41.8    
42.0    
42.2    
42.4    
42.6    
42.9    
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44.1    
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44.6    
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48.2    
48.4    
48.6    
48.8    
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65.9    
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66.3    
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77.6    
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78.0    
78.3    
78.5    
78.7    
78.9    
79.1    
79.3    
79.5    
79.7    
80.0    
80.2    
80.4    
80.6    
80.8    
81.0    
81.2    
81.4    
81.7    
81.9    
82.1    
82.3    
82.5    
82.7    
82.9    
83.2    
83.4    
83.6    
83.8    
84.0    
84.2    
84.4    
84.6    
84.9    
85.1    
85.3    
85.5    
85.7    
85.9    
86.1    
86.4    
86.6    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
88.1    
88.3    
88.5    
88.7    
88.9    
89.1    
89.3    
89.6    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.0    
91.3    
91.5    
91.7    
91.9    
92.1    
92.3    
92.5    
92.8    
93.0    
93.2    
93.4    
93.6    
93.8    
94.0    
94.2    
94.5    
94.7    
94.9    
95.1    
95.3    
95.5    
95.7    
95.9    
96.2    
96.4    
96.6    
96.8    
97.0    
97.2    
97.4    
97.7    
97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.1    
99.4    
99.6    
99.8    
-found 36 predictions from path traversal
Error with prediction: snap lend_intergenic: 11594, rend_intergenic: 11042  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25173, rend_intergenic: 12773  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 30350, rend_intergenic: 26808  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 32840, rend_intergenic: 31404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45308, rend_intergenic: 42506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62357, rend_intergenic: 45786  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 76730, rend_intergenic: 63102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84676, rend_intergenic: 77046  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 87095, rend_intergenic: 85367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88023, rend_intergenic: 87583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96578, rend_intergenic: 88063  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102531, rend_intergenic: 98306  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 112184, rend_intergenic: 104386  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161132, rend_intergenic: 128356  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187184, rend_intergenic: 174926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 198060, rend_intergenic: 188523  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200555, rend_intergenic: 198177  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 21 predictions persist after filtering for low support