-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_7/scaffold_7_167360-329068

-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 118712, 118981
Sorry, prediction pasa_asmbl_50432.p1 fails validation.
(CTC)	 GT	118712-118981	GT	TGG
(GTT)	 AG	119073-119108	GT	AGG
(GTT)	 AG	119219-119335	GT	AGG
(TGT)	 AG	120170-120268	GT	AGG
(GAT)	 AG	120632-120760	GT	AGG
(GGA)	 AG	120917-120946	GA	AGG
-recovered pasa_asmbl_50432.p1, terminal, 120917, 120946
-recovered pasa_asmbl_50432.p1, internal, 119073, 119108
-recovered pasa_asmbl_50432.p1, internal, 119219, 119335
-recovered pasa_asmbl_50432.p1, internal, 120170, 120268
-recovered pasa_asmbl_50432.p1, internal, 120632, 120760
Valid prediction for GeneMark_model.28754_t
Valid prediction for GeneMark_model.28736_t
Valid prediction for GlimmerHMM_glimmerT_17117-T1
Valid prediction for snap_scaffold_7-snap.72-T1
Valid prediction for GeneMark_model.28740_t
Valid prediction for GeneMark_model.28746_t
Valid prediction for GeneMark_model.28728_t
Valid prediction for Augustus_model.g11490.t1
Valid prediction for snap_scaffold_7-snap.45-T1
Valid prediction for snap_scaffold_7-snap.66-T1
Valid prediction for snap_scaffold_7-snap.79-T1
Valid prediction for GlimmerHMM_glimmerT_17107-T1
Valid prediction for GlimmerHMM_glimmerT_17111-T1
Valid prediction for snap_scaffold_7-snap.77-T1
Valid prediction for GlimmerHMM_glimmerT_17115-T1
Valid prediction for GlimmerHMM_glimmerT_17110-T1
Valid prediction for snap_scaffold_7-snap.71-T1
Valid prediction for GlimmerHMM_glimmerT_17097-T1
Valid prediction for snap_scaffold_7-snap.50-T1
Valid prediction for GeneMark_model.28751_t
Valid prediction for GlimmerHMM_glimmerT_17094-T1
Valid prediction for snap_scaffold_7-snap.52-T1
Valid prediction for snap_scaffold_7-snap.61-T1
Valid prediction for snap_scaffold_7-snap.69-T1
Valid prediction for snap_scaffold_7-snap.57-T1
Valid prediction for Augustus_model.g11479.t1
Valid prediction for snap_scaffold_7-snap.47-T1
Valid prediction for GeneMark_model.28729_t
Valid prediction for pasa_asmbl_50431.p1
Valid prediction for pasa_asmbl_50433.p1
Valid prediction for GeneMark_model.28744_t
Valid prediction for GlimmerHMM_glimmerT_17112-T1
Valid prediction for GlimmerHMM_glimmerT_17099-T1
Valid prediction for snap_scaffold_7-snap.49-T1
Couldn't classify 47749, 47895
Couldn't classify 48038, 48343
Sorry, prediction pasa_asmbl_50421.p1 fails validation.
(GTG)	 AG	47749-47895	GT	AGG
(CTG)	 AG	48038-48343	AA	CCA
-recovered pasa_asmbl_50421.p1, internal, 47749, 47895
Valid prediction for GlimmerHMM_glimmerT_17116-T1
Valid prediction for GeneMark_model.28735_t
Valid prediction for snap_scaffold_7-snap.55-T1
Valid prediction for snap_scaffold_7-snap.70-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_17106-T1
Valid prediction for snap_scaffold_7-snap.63-T1
Valid prediction for GeneMark_model.28743_t
Valid prediction for GeneMark_model.28741_t
Couldn't classify 49415, 50762
Sorry, prediction pasa_asmbl_50422.p1 fails validation.
(CGC)	 CT	49415-50762	GT	GGG
(ACG)	 AG	51460-51755	GT	AGG
(TGT)	 AG	51855-51972	GT	TGG
(GTG)	 AG	52179-52268	GT	GGG
(GCA)	 AG	52391-52545	GT	TGG
(GCC)	 AG	52652-52851	GT	AAG
(GAA)	 AG	54533-54614	GA	AGG
-recovered pasa_asmbl_50422.p1, terminal, 54533, 54614
-recovered pasa_asmbl_50422.p1, internal, 51460, 51755
-recovered pasa_asmbl_50422.p1, internal, 51855, 51972
-recovered pasa_asmbl_50422.p1, internal, 52179, 52268
-recovered pasa_asmbl_50422.p1, internal, 52391, 52545
-recovered pasa_asmbl_50422.p1, internal, 52652, 52851
Valid prediction for GlimmerHMM_glimmerT_17103-T1
Valid prediction for GeneMark_model.28749_t
Valid prediction for snap_scaffold_7-snap.43-T1
Valid prediction for GeneMark_model.28753_t
Valid prediction for snap_scaffold_7-snap.80-T1
Valid prediction for Augustus_model.g11485.t1
Valid prediction for CodingQuarry_transcript_57262-T1
Valid prediction for snap_scaffold_7-snap.51-T1
Valid prediction for Augustus_model.g11488.t1
Valid prediction for GlimmerHMM_glimmerT_17113-T1
Valid prediction for HiQ_model.g11489.t1
Valid prediction for snap_scaffold_7-snap.44-T1
Valid prediction for CodingQuarry_transcript_57261-T1
Valid prediction for GlimmerHMM_glimmerT_17095-T1
Valid prediction for GeneMark_model.28757_t
Valid prediction for snap_scaffold_7-snap.58-T1
Valid prediction for snap_scaffold_7-snap.67-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 pasa_asmbl_49494.p1
Valid prediction for GeneMark_model.28730_t
Valid prediction for snap_scaffold_7-snap.62-T1
Valid prediction for Augustus_model.g11481.t1
Valid prediction for GeneMark_model.28737_t
Valid prediction for GlimmerHMM_glimmerT_17105-T1
Valid prediction for GlimmerHMM_glimmerT_17120-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_17119-T1
Valid prediction for GeneMark_model.28748_t
Valid prediction for snap_scaffold_7-snap.68-T1
Valid prediction for snap_scaffold_7-snap.74-T1
Valid prediction for GlimmerHMM_glimmerT_17114-T1
Valid prediction for GeneMark_model.28755_t
Valid prediction for Augustus_model.g11484.t1
Valid prediction for snap_scaffold_7-snap.73-T1
Valid prediction for GeneMark_model.28756_t
Valid prediction for snap_scaffold_7-snap.60-T1
Valid prediction for Augustus_model.g11482.t1
Valid prediction for snap_scaffold_7-snap.54-T1
Valid prediction for GlimmerHMM_glimmerT_17098-T1
Valid prediction for snap_scaffold_7-snap.53-T1
Valid prediction for GeneMark_model.28739_t
Valid prediction for snap_scaffold_7-snap.75-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_17104-T1
Valid prediction for GeneMark_model.28750_t
Valid prediction for GeneMark_model.28758_t
Valid prediction for Augustus_model.g11487.t1
Valid prediction for GeneMark_model.28731_t
Valid prediction for GlimmerHMM_glimmerT_17118-T1
Valid prediction for GeneMark_model.28738_t
Valid prediction for HiQ_model.g11486.t1
Valid prediction for snap_scaffold_7-snap.78-T1
Valid prediction for GeneMark_model.28745_t
Valid prediction for GeneMark_model.28732_t
Valid prediction for snap_scaffold_7-snap.56-T1
Valid prediction for snap_scaffold_7-snap.64-T1
Valid prediction for Augustus_model.g11492.t1
Valid prediction for GlimmerHMM_glimmerT_17102-T1
Valid prediction for GlimmerHMM_glimmerT_17108-T1
Valid prediction for GeneMark_model.28734_t
Valid prediction for GeneMark_model.28726_t
Valid prediction for snap_scaffold_7-snap.46-T1
Valid prediction for GlimmerHMM_glimmerT_17121-T1
Valid prediction for snap_scaffold_7-snap.76-T1
Valid prediction for Augustus_model.g11483.t1
Valid prediction for CodingQuarry_transcript_57258-T1
Valid prediction for GlimmerHMM_glimmerT_17101-T1
Valid prediction for snap_scaffold_7-snap.59-T1
Valid prediction for GlimmerHMM_glimmerT_17100-T1
Valid prediction for snap_scaffold_7-snap.65-T1
Valid prediction for GlimmerHMM_glimmerT_17096-T1
Valid prediction for GeneMark_model.28742_t
Valid prediction for Augustus_model.g11480.t1
Valid prediction for snap_scaffold_7-snap.48-T1
Valid prediction for Augustus_model.g11491.t1
Valid prediction for GlimmerHMM_glimmerT_17109-T1
Valid prediction for GeneMark_model.28733_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14676, rend_intergenic: 13332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25441, rend_intergenic: 19389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54614, rend_intergenic: 51549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64945, rend_intergenic: 56446  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80504, rend_intergenic: 77322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85100, rend_intergenic: 80537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98059, rend_intergenic: 86820  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102171, rend_intergenic: 101838  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120946, rend_intergenic: 112925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142504, rend_intergenic: 137374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153964, rend_intergenic: 151887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157485, rend_intergenic: 154235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 161709
-exon list size: 552


building trellis

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55.6    
55.8    
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56.1    
56.3    
56.5    
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56.9    
57.0    
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58.7    
58.8    
59.0    
59.2    
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60.1    
60.3    
60.5    
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61.0    
61.2    
61.4    
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63.0    
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64.1    
64.3    
64.4    
64.6    
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65.2    
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66.1    
66.2    
66.4    
66.6    
66.8    
67.0    
67.1    
67.3    
67.5    
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68.2    
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68.6    
68.8    
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69.3    
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71.3    
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76.2    
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77.3    
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77.8    
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79.2    
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79.6    
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80.1    
80.3    
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80.9    
81.0    
81.2    
81.4    
81.6    
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82.1    
82.3    
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82.7    
82.9    
83.0    
83.2    
83.4    
83.6    
83.8    
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84.3    
84.5    
84.7    
84.8    
85.0    
85.2    
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86.1    
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86.5    
86.6    
86.8    
87.0    
87.2    
87.4    
87.5    
87.7    
87.9    
88.1    
88.3    
88.4    
88.6    
88.8    
89.0    
89.2    
89.4    
89.5    
89.7    
89.9    
90.1    
90.3    
90.4    
90.6    
90.8    
91.0    
91.2    
91.3    
91.5    
91.7    
91.9    
92.1    
92.2    
92.4    
92.6    
92.8    
93.0    
93.1    
93.3    
93.5    
93.7    
93.9    
94.0    
94.2    
94.4    
94.6    
94.8    
94.9    
95.1    
95.3    
95.5    
95.7    
95.8    
96.0    
96.2    
96.4    
96.6    
96.8    
96.9    
97.1    
97.3    
97.5    
97.7    
97.8    
98.0    
98.2    
98.4    
98.6    
98.7    
98.9    
99.1    
99.3    
99.5    
99.6    
99.8    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 14676, rend_intergenic: 13332  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25441, rend_intergenic: 19389  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54614, rend_intergenic: 51549  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64945, rend_intergenic: 56446  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80504, rend_intergenic: 77322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85100, rend_intergenic: 80537  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98059, rend_intergenic: 86820  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102171, rend_intergenic: 101838  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 120946, rend_intergenic: 112925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 142504, rend_intergenic: 137374  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153964, rend_intergenic: 151887  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157485, rend_intergenic: 154235  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support