-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_10046967-10207412

-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 pasa_asmbl_32544.p1
Valid prediction for GlimmerHMM_glimmerT_53268-T1
Valid prediction for Augustus_model.g35467.t1
Valid prediction for GlimmerHMM_glimmerT_53271-T1
Valid prediction for snap_scaffold_24-snap.2130-T1
Valid prediction for CodingQuarry_transcript_37428-T1
Valid prediction for snap_scaffold_24-snap.2165-T1
Valid prediction for HiQ_model.g35471.t1
Valid prediction for snap_scaffold_24-snap.2133-T1
Valid prediction for Augustus_model.g35469.t1
Valid prediction for snap_scaffold_24-snap.2156-T1
Valid prediction for snap_scaffold_24-snap.2151-T1
Valid prediction for snap_scaffold_24-snap.2132-T1
Valid prediction for snap_scaffold_24-snap.2143-T1
Valid prediction for GlimmerHMM_glimmerT_53297-T1
Valid prediction for Augustus_model.g35470.t1
Valid prediction for snap_scaffold_24-snap.2152-T1
Valid prediction for GlimmerHMM_glimmerT_53289-T1
Valid prediction for GlimmerHMM_glimmerT_53294-T1
Valid prediction for pasa_asmbl_32545.p2
Valid prediction for snap_scaffold_24-snap.2146-T1
Valid prediction for GlimmerHMM_glimmerT_53266-T1
Valid prediction for GlimmerHMM_glimmerT_53290-T1
Valid prediction for snap_scaffold_24-snap.2172-T1
Valid prediction for snap_scaffold_24-snap.2138-T1
Valid prediction for Augustus_model.g35472.t1
Valid prediction for snap_scaffold_24-snap.2144-T1
Valid prediction for GlimmerHMM_glimmerT_53278-T1
Valid prediction for snap_scaffold_24-snap.2149-T1
Valid prediction for GlimmerHMM_glimmerT_53282-T1
Valid prediction for snap_scaffold_24-snap.2155-T1
Valid prediction for Augustus_model.g35461.t1
Valid prediction for GlimmerHMM_glimmerT_53267-T1
Valid prediction for snap_scaffold_24-snap.2161-T1
Valid prediction for snap_scaffold_24-snap.2157-T1
Valid prediction for Augustus_model.g35473.t1
Valid prediction for GlimmerHMM_glimmerT_53283-T1
Valid prediction for CodingQuarry_transcript_37427-T1
Valid prediction for snap_scaffold_24-snap.2139-T1
Valid prediction for GlimmerHMM_glimmerT_53285-T1
Valid prediction for snap_scaffold_24-snap.2135-T1
Valid prediction for snap_scaffold_24-snap.2170-T1
Valid prediction for GlimmerHMM_glimmerT_53272-T1
Valid prediction for snap_scaffold_24-snap.2163-T1
Valid prediction for snap_scaffold_24-snap.2168-T1
Valid prediction for GlimmerHMM_glimmerT_53273-T1
Valid prediction for GlimmerHMM_glimmerT_53284-T1
Couldn't classify 81614, 81704
Sorry, prediction pasa_asmbl_32542.p1 fails validation.
(AGA)	 GT	81614-81704	GT	AGG
(CTC)	 AG	82256-82381	GT	AGG
(AAT)	 AG	82722-82827	GT	ACG
(TGG)	 AG	83044-83125	GG	GAG
-recovered pasa_asmbl_32542.p1, terminal, 83044, 83125
-recovered pasa_asmbl_32542.p1, internal, 82256, 82381
-recovered pasa_asmbl_32542.p1, internal, 82722, 82827
Valid prediction for Augustus_model.g35468.t1
Valid prediction for GlimmerHMM_glimmerT_53275-T1
Valid prediction for snap_scaffold_24-snap.2145-T1
Valid prediction for snap_scaffold_24-snap.2150-T1
Valid prediction for snap_scaffold_24-snap.2166-T1
Valid prediction for snap_scaffold_24-snap.2158-T1
Valid prediction for Augustus_model.g35459.t1
Valid prediction for Augustus_model.g35466.t1
Valid prediction for CodingQuarry_transcript_37426-T1
Valid prediction for snap_scaffold_24-snap.2154-T1
Valid prediction for snap_scaffold_24-snap.2175-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_24-snap.2167-T1
Valid prediction for GlimmerHMM_glimmerT_53293-T1
Valid prediction for GlimmerHMM_glimmerT_53270-T1
Valid prediction for snap_scaffold_24-snap.2141-T1
Valid prediction for snap_scaffold_24-snap.2169-T1
Valid prediction for snap_scaffold_24-snap.2174-T1
Valid prediction for GlimmerHMM_glimmerT_53295-T1
Valid prediction for GlimmerHMM_glimmerT_53287-T1
Valid prediction for Augustus_model.g35460.t1
Valid prediction for GlimmerHMM_glimmerT_53280-T1
Valid prediction for GlimmerHMM_glimmerT_53296-T1
Valid prediction for Augustus_model.g35458.t1
Valid prediction for GlimmerHMM_glimmerT_53265-T1
Valid prediction for Augustus_model.g35463.t1
Valid prediction for snap_scaffold_24-snap.2173-T1
Valid prediction for GlimmerHMM_glimmerT_53269-T1
Valid prediction for snap_scaffold_24-snap.2148-T1
Valid prediction for snap_scaffold_24-snap.2171-T1
Valid prediction for snap_scaffold_24-snap.2136-T1
Valid prediction for snap_scaffold_24-snap.2164-T1
Valid prediction for Augustus_model.g35465.t1
Valid prediction for GlimmerHMM_glimmerT_53292-T1
Couldn't classify 92674, 93390
Couldn't classify 96242, 96362
Sorry, prediction pasa_asmbl_33167.p1 fails validation.
(TTC)	 CG	92674-93390	GT	TAG
(GTT)	 AG	95605-95747	GT	AGG
(GTC)	 AG	95922-95981	GT	AGG
(AGA)	 AG	96242-96362	AG	AAA
-recovered pasa_asmbl_33167.p1, internal, 95605, 95747
-recovered pasa_asmbl_33167.p1, internal, 95922, 95981
Valid prediction for snap_scaffold_24-snap.2153-T1
Valid prediction for snap_scaffold_24-snap.2160-T1
Valid prediction for snap_scaffold_24-snap.2142-T1
Valid prediction for snap_scaffold_24-snap.2159-T1
Valid prediction for GlimmerHMM_glimmerT_53281-T1
Valid prediction for GlimmerHMM_glimmerT_53274-T1
Valid prediction for Augustus_model.g35462.t1
Valid prediction for snap_scaffold_24-snap.2134-T1
Valid prediction for Augustus_model.g35464.t1
Valid prediction for snap_scaffold_24-snap.2137-T1
Valid prediction for snap_scaffold_24-snap.2131-T1
Valid prediction for GlimmerHMM_glimmerT_53288-T1
Valid prediction for snap_scaffold_24-snap.2140-T1
Couldn't classify 138087, 138243
Sorry, prediction pasa_asmbl_33224.p1 fails validation.
(GAG)	 GA	138087-138243	GT	CAG
(CCT)	 AG	140325-140719	GT	AGG
(GTC)	 AG	141909-142074	GT	TGG
(ACA)	 AG	142240-142370	GT	AGG
(GTG)	 AG	142765-142902	GT	AGG
(ATC)	 AG	143066-143199	GT	AAG
(GTA)	 AG	144406-144581	GT	CAG
(GCG)	 AG	144695-144903	TG	AAT
-recovered pasa_asmbl_33224.p1, terminal, 144695, 144903
-recovered pasa_asmbl_33224.p1, internal, 140325, 140719
-recovered pasa_asmbl_33224.p1, internal, 141909, 142074
-recovered pasa_asmbl_33224.p1, internal, 142240, 142370
-recovered pasa_asmbl_33224.p1, internal, 142765, 142902
-recovered pasa_asmbl_33224.p1, internal, 143066, 143199
-recovered pasa_asmbl_33224.p1, internal, 144406, 144581
Valid prediction for GlimmerHMM_glimmerT_53279-T1
Valid prediction for GlimmerHMM_glimmerT_53277-T1
Valid prediction for snap_scaffold_24-snap.2147-T1
Valid prediction for GlimmerHMM_glimmerT_53291-T1
Valid prediction for GlimmerHMM_glimmerT_53286-T1
Valid prediction for snap_scaffold_24-snap.2162-T1
Valid prediction for GlimmerHMM_glimmerT_53276-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4846, rend_intergenic: 2974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13580, rend_intergenic: 10613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15246, rend_intergenic: 14833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20514, rend_intergenic: 15544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24358, rend_intergenic: 20553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31954, rend_intergenic: 26400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49462, rend_intergenic: 38224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55951, rend_intergenic: 51292  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69022, rend_intergenic: 56403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73429, rend_intergenic: 69990  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97416, rend_intergenic: 88149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102634, rend_intergenic: 97545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110394, rend_intergenic: 108409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117919, rend_intergenic: 110405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130495, rend_intergenic: 127676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137134, rend_intergenic: 134539  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156045, rend_intergenic: 139757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 160446
-exon list size: 368


building trellis

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1.1    
1.4    
1.6    
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11.6    
11.9    
12.2    
12.4    
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14.3    
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17.6    
17.8    
18.1    
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18.6    
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26.8    
27.0    
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27.6    
27.8    
28.1    
28.4    
28.6    
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29.2    
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30.0    
30.3    
30.5    
30.8    
31.1    
31.4    
31.6    
31.9    
32.2    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.3    
34.6    
34.9    
35.1    
35.4    
35.7    
35.9    
36.2    
36.5    
36.8    
37.0    
37.3    
37.6    
37.8    
38.1    
38.4    
38.6    
38.9    
39.2    
39.5    
39.7    
40.0    
40.3    
40.5    
40.8    
41.1    
41.4    
41.6    
41.9    
42.2    
42.4    
42.7    
43.0    
43.2    
43.5    
43.8    
44.1    
44.3    
44.6    
44.9    
45.1    
45.4    
45.7    
45.9    
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46.5    
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47.0    
47.3    
47.6    
47.8    
48.1    
48.4    
48.6    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.4    
51.6    
51.9    
52.2    
52.4    
52.7    
53.0    
53.2    
53.5    
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54.3    
54.6    
54.9    
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55.4    
55.7    
55.9    
56.2    
56.5    
56.8    
57.0    
57.3    
57.6    
57.8    
58.1    
58.4    
58.6    
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59.2    
59.5    
59.7    
60.0    
60.3    
60.5    
60.8    
61.1    
61.4    
61.6    
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62.2    
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64.3    
64.6    
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65.9    
66.2    
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67.0    
67.3    
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68.4    
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73.2    
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74.3    
74.6    
74.9    
75.1    
75.4    
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76.2    
76.5    
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77.0    
77.3    
77.6    
77.8    
78.1    
78.4    
78.6    
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79.2    
79.5    
79.7    
80.0    
80.3    
80.5    
80.8    
81.1    
81.4    
81.6    
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82.2    
82.4    
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83.0    
83.2    
83.5    
83.8    
84.1    
84.3    
84.6    
84.9    
85.1    
85.4    
85.7    
85.9    
86.2    
86.5    
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87.0    
87.3    
87.6    
87.8    
88.1    
88.4    
88.6    
88.9    
89.2    
89.5    
89.7    
90.0    
90.3    
90.5    
90.8    
91.1    
91.4    
91.6    
91.9    
92.2    
92.4    
92.7    
93.0    
93.2    
93.5    
93.8    
94.1    
94.3    
94.6    
94.9    
95.1    
95.4    
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95.9    
96.2    
96.5    
96.8    
97.0    
97.3    
97.6    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 33 predictions from path traversal
Error with prediction: snap lend_intergenic: 4846, rend_intergenic: 2974  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13580, rend_intergenic: 10613  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 15246, rend_intergenic: 14833  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20514, rend_intergenic: 15544  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24358, rend_intergenic: 20553  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31954, rend_intergenic: 26400  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49462, rend_intergenic: 38224  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 55951, rend_intergenic: 51292  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69022, rend_intergenic: 56403  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73429, rend_intergenic: 69990  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97416, rend_intergenic: 88149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102634, rend_intergenic: 97545  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110394, rend_intergenic: 108409  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117919, rend_intergenic: 110405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130495, rend_intergenic: 127676  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137134, rend_intergenic: 134539  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156045, rend_intergenic: 139757  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support