-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_11655064-11838628

-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_10-snap.2299-T1
Valid prediction for snap_scaffold_10-snap.2281-T1
Valid prediction for snap_scaffold_10-snap.2288-T1
Valid prediction for snap_scaffold_10-snap.2273-T1
Couldn't classify 96599, 96706
Sorry, prediction pasa_asmbl_3495.p1 fails validation.
(ATG)	 AG	90144-90220	GT	AGG
(TCC)	 AG	92310-92445	GT	AGG
(AGC)	 AG	94481-94615	GT	AGG
(CTG)	 AG	95339-95462	GT	GGG
(GCA)	 AG	95800-95936	GT	AGG
(GTG)	 AG	96599-96706	GG	ATG
-recovered pasa_asmbl_3495.p1, initial, 90144, 90220
-recovered pasa_asmbl_3495.p1, internal, 90144, 90220
-recovered pasa_asmbl_3495.p1, internal, 92310, 92445
-recovered pasa_asmbl_3495.p1, internal, 94481, 94615
-recovered pasa_asmbl_3495.p1, internal, 95339, 95462
-recovered pasa_asmbl_3495.p1, internal, 95800, 95936
Valid prediction for snap_scaffold_10-snap.2276-T1
Valid prediction for GlimmerHMM_glimmerT_25486-T1
Valid prediction for Augustus_model.g16950.t1
Valid prediction for snap_scaffold_10-snap.2306-T1
Valid prediction for GlimmerHMM_glimmerT_25492-T1
Valid prediction for GlimmerHMM_glimmerT_25472-T1
Valid prediction for GlimmerHMM_glimmerT_25493-T1
Valid prediction for Augustus_model.g16949.t1
Valid prediction for snap_scaffold_10-snap.2291-T1
Valid prediction for snap_scaffold_10-snap.2280-T1
Valid prediction for GlimmerHMM_glimmerT_25476-T1
Valid prediction for snap_scaffold_10-snap.2289-T1
Valid prediction for GlimmerHMM_glimmerT_25473-T1
Valid prediction for snap_scaffold_10-snap.2294-T1
Valid prediction for snap_scaffold_10-snap.2302-T1
Valid prediction for snap_scaffold_10-snap.2297-T1
Valid prediction for Augustus_model.g16952.t1
Valid prediction for snap_scaffold_10-snap.2282-T1
Valid prediction for snap_scaffold_10-snap.2275-T1
Valid prediction for Augustus_model.g16953.t1
Valid prediction for Augustus_model.g16954.t1
Couldn't classify 101653, 101834
Sorry, prediction pasa_asmbl_3496.p1 fails validation.
(TGT)	 AG	101653-101834	GT	AGG
(AGT)	 AG	103012-103237	GT	AGG
(TTT)	 AG	104122-104332	GT	AGG
(GCC)	 AG	106229-106497	GG	GAG
-recovered pasa_asmbl_3496.p1, terminal, 106229, 106497
-recovered pasa_asmbl_3496.p1, internal, 101653, 101834
-recovered pasa_asmbl_3496.p1, internal, 103012, 103237
-recovered pasa_asmbl_3496.p1, internal, 104122, 104332
Valid prediction for Augustus_model.g16944.t1
Valid prediction for snap_scaffold_10-snap.2284-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g16941.t1
Valid prediction for GlimmerHMM_glimmerT_25474-T1
Valid prediction for snap_scaffold_10-snap.2300-T1
Valid prediction for GlimmerHMM_glimmerT_25479-T1
Valid prediction for snap_scaffold_10-snap.2272-T1
Valid prediction for GlimmerHMM_glimmerT_25488-T1
Valid prediction for GlimmerHMM_glimmerT_25497-T1
Valid prediction for snap_scaffold_10-snap.2286-T1
Valid prediction for GlimmerHMM_glimmerT_25499-T1
Valid prediction for snap_scaffold_10-snap.2277-T1
Couldn't classify 169663, 169820
Sorry, prediction pasa_asmbl_3497.p1 fails validation.
(TCC)	 CG	169663-169820	GT	AGG
(TGC)	 AG	170121-170274	GT	CTG
(GTG)	 AG	170550-170663	GT	CAG
(GCA)	 AG	173155-173353	GT	AGG
(GAG)	 AG	174882-175004	GT	CGG
(AGG)	 AG	175646-175759	GT	AGG
(ATT)	 AG	176707-176791	GT	GGG
(TCA)	 AG	177392-177436	GT	AGG
(GTT)	 AG	178055-178247	GT	TGG
(AAT)	 AG	178553-178686	GT	AGG
(TCC)	 AG	179959-180037	GT	AGG
(GTG)	 AG	180327-180461	GT	AGG
(GTT)	 AG	180588-180713	GA	GAG
add_exon() Sorry, pasa_asmbl_3497.p1 175646-175759-terminal-1 is invalid.
-recovered pasa_asmbl_3497.p1, terminal, 175646, 175759
-recovered pasa_asmbl_3497.p1, terminal, 180588, 180713
-recovered pasa_asmbl_3497.p1, internal, 170121, 170274
-recovered pasa_asmbl_3497.p1, internal, 170550, 170663
-recovered pasa_asmbl_3497.p1, internal, 173155, 173353
-recovered pasa_asmbl_3497.p1, internal, 174882, 175004
-recovered pasa_asmbl_3497.p1, internal, 175646, 175759
-recovered pasa_asmbl_3497.p1, internal, 176707, 176791
-recovered pasa_asmbl_3497.p1, internal, 177392, 177436
-recovered pasa_asmbl_3497.p1, internal, 178055, 178247
-recovered pasa_asmbl_3497.p1, internal, 178553, 178686
-recovered pasa_asmbl_3497.p1, internal, 179959, 180037
-recovered pasa_asmbl_3497.p1, internal, 180327, 180461
Valid prediction for GlimmerHMM_glimmerT_25484-T1
Valid prediction for Augustus_model.g16948.t1
Valid prediction for snap_scaffold_10-snap.2285-T1
Valid prediction for HiQ_model.g16956.t1
Valid prediction for snap_scaffold_10-snap.2298-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_25477-T1
Valid prediction for snap_scaffold_10-snap.2303-T1
Valid prediction for GlimmerHMM_glimmerT_25496-T1
Valid prediction for GlimmerHMM_glimmerT_25489-T1
Valid prediction for snap_scaffold_10-snap.2307-T1
Valid prediction for Augustus_model.g16947.t1
Valid prediction for snap_scaffold_10-snap.2305-T1
Valid prediction for snap_scaffold_10-snap.2287-T1
Valid prediction for GlimmerHMM_glimmerT_25475-T1
Valid prediction for snap_scaffold_10-snap.2296-T1
Valid prediction for GlimmerHMM_glimmerT_25482-T1
Valid prediction for snap_scaffold_10-snap.2278-T1
Valid prediction for Augustus_model.g16951.t1
Valid prediction for GlimmerHMM_glimmerT_25494-T1
Valid prediction for snap_scaffold_10-snap.2301-T1
Valid prediction for Augustus_model.g16945.t1
Valid prediction for GlimmerHMM_glimmerT_25480-T1
Valid prediction for Augustus_model.g16955.t1
Valid prediction for Augustus_model.g16942.t1
Valid prediction for snap_scaffold_10-snap.2292-T1
Valid prediction for GlimmerHMM_glimmerT_25478-T1
Valid prediction for Augustus_model.g16946.t1
Valid prediction for GlimmerHMM_glimmerT_25483-T1
Valid prediction for snap_scaffold_10-snap.2279-T1
Valid prediction for snap_scaffold_10-snap.2304-T1
Valid prediction for GlimmerHMM_glimmerT_25498-T1
Valid prediction for GlimmerHMM_glimmerT_25495-T1
Valid prediction for GlimmerHMM_glimmerT_25490-T1
Valid prediction for snap_scaffold_10-snap.2295-T1
Valid prediction for GlimmerHMM_glimmerT_25491-T1
Valid prediction for GlimmerHMM_glimmerT_25487-T1
Valid prediction for Augustus_model.g16943.t1
Valid prediction for snap_scaffold_10-snap.2293-T1
Valid prediction for snap_scaffold_10-snap.2274-T1
Valid prediction for snap_scaffold_10-snap.2290-T1
Valid prediction for GlimmerHMM_glimmerT_25485-T1
Valid prediction for snap_scaffold_10-snap.2283-T1
Valid prediction for GlimmerHMM_glimmerT_25481-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 22347, rend_intergenic: 20221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47365, rend_intergenic: 40584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72166, rend_intergenic: 71096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98727, rend_intergenic: 86813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105774, rend_intergenic: 103073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109564, rend_intergenic: 106919  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180713, rend_intergenic: 174768  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 183565
-exon list size: 261


building trellis

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37.3    
37.6    
38.0    
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40.3    
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44.9    
45.2    
45.6    
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46.4    
46.8    
47.1    
47.5    
47.9    
48.3    
48.7    
49.0    
49.4    
49.8    
50.2    
50.6    
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51.3    
51.7    
52.1    
52.5    
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53.2    
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60.8    
61.2    
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63.1    
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64.3    
64.6    
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75.3    
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76.0    
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78.7    
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80.2    
80.6    
81.0    
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81.7    
82.1    
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82.9    
83.3    
83.7    
84.0    
84.4    
84.8    
85.2    
85.6    
85.9    
86.3    
86.7    
87.1    
87.5    
87.8    
88.2    
88.6    
89.0    
89.4    
89.7    
90.1    
90.5    
90.9    
91.3    
91.6    
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95.1    
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96.2    
96.6    
97.0    
97.3    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 22347, rend_intergenic: 20221  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47365, rend_intergenic: 40584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72166, rend_intergenic: 71096  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98727, rend_intergenic: 86813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105774, rend_intergenic: 103073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 109564, rend_intergenic: 106919  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 180713, rend_intergenic: 174768  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 10097
-exon list size: 2


building trellis

25.0    
50.0    
75.0    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support