-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_27/scaffold_27_740593-965690

-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_27-snap.195-T1
Valid prediction for snap_scaffold_27-snap.192-T1
Valid prediction for snap_scaffold_27-snap.176-T1
Valid prediction for snap_scaffold_27-snap.182-T1
Valid prediction for snap_scaffold_27-snap.203-T1
Valid prediction for snap_scaffold_27-snap.216-T1
Valid prediction for snap_scaffold_27-snap.194-T1
Valid prediction for snap_scaffold_27-snap.199-T1
Valid prediction for snap_scaffold_27-snap.187-T1
Valid prediction for Augustus_model.g37499.t1
Valid prediction for snap_scaffold_27-snap.208-T1
Valid prediction for snap_scaffold_27-snap.198-T1
Valid prediction for GlimmerHMM_glimmerT_56590-T1
Valid prediction for snap_scaffold_27-snap.180-T1
Valid prediction for Augustus_model.g37497.t1
Valid prediction for GlimmerHMM_glimmerT_56579-T1
Valid prediction for snap_scaffold_27-snap.200-T1
Valid prediction for GlimmerHMM_glimmerT_56592-T1
Valid prediction for GlimmerHMM_glimmerT_56586-T1
Valid prediction for GlimmerHMM_glimmerT_56582-T1
Valid prediction for GlimmerHMM_glimmerT_56587-T1
Valid prediction for snap_scaffold_27-snap.186-T1
Valid prediction for Augustus_model.g37498.t1
Valid prediction for Augustus_model.g37501.t1
Valid prediction for Augustus_model.g37500.t1
Valid prediction for snap_scaffold_27-snap.219-T1
Valid prediction for GlimmerHMM_glimmerT_56594-T1
Valid prediction for snap_scaffold_27-snap.212-T1
Valid prediction for Augustus_model.g37494.t1
Valid prediction for snap_scaffold_27-snap.211-T1
Valid prediction for snap_scaffold_27-snap.204-T1
Valid prediction for GlimmerHMM_glimmerT_56595-T1
Valid prediction for snap_scaffold_27-snap.181-T1
Valid prediction for snap_scaffold_27-snap.184-T1
Valid prediction for snap_scaffold_27-snap.183-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 HiQ_model.g37504.t1
Valid prediction for snap_scaffold_27-snap.202-T1
Valid prediction for snap_scaffold_27-snap.214-T1
Valid prediction for GlimmerHMM_glimmerT_56593-T1
Valid prediction for CodingQuarry_transcript_41761-T1
Valid prediction for GlimmerHMM_glimmerT_56600-T1
Valid prediction for Augustus_model.g37502.t1
Valid prediction for snap_scaffold_27-snap.190-T1
Valid prediction for snap_scaffold_27-snap.188-T1
Valid prediction for snap_scaffold_27-snap.213-T1
Valid prediction for snap_scaffold_27-snap.220-T1
Valid prediction for snap_scaffold_27-snap.215-T1
Valid prediction for pasa_asmbl_36718.p1
Valid prediction for CodingQuarry_transcript_41754-T1
Couldn't classify 19037, 19266
Sorry, prediction pasa_asmbl_36727.p1 fails validation.
(ACC)	 GC	19037-19266	GT	AAG
(GAT)	 AG	19356-19511	GT	AGG
(ATC)	 AG	20238-20387	GT	AGG
(GGG)	 AG	20521-22103	GT	TGG
(GTT)	 AG	22386-22562	GT	CTG
(GTG)	 AG	22682-22933	GT	TGG
(AGT)	 AG	24138-24343	GT	AGG
(GGT)	 AG	24499-24660	GT	AGG
(GTG)	 AG	24777-24836	AT	AAA
-recovered pasa_asmbl_36727.p1, terminal, 24777, 24836
-recovered pasa_asmbl_36727.p1, internal, 19356, 19511
-recovered pasa_asmbl_36727.p1, internal, 20238, 20387
-recovered pasa_asmbl_36727.p1, internal, 20521, 22103
-recovered pasa_asmbl_36727.p1, internal, 22386, 22562
-recovered pasa_asmbl_36727.p1, internal, 22682, 22933
-recovered pasa_asmbl_36727.p1, internal, 24138, 24343
-recovered pasa_asmbl_36727.p1, internal, 24499, 24660
Valid prediction for GlimmerHMM_glimmerT_56588-T1
Couldn't classify 15519, 15536
Couldn't classify 18935, 18970
Sorry, prediction pasa_asmbl_36730.p1 fails validation.
(GTG)	 CC	15519-15536	GT	ATG
(ACG)	 AG	15655-15766	GT	AGG
(GTT)	 AG	15851-15996	GT	AGG
(GTG)	 AG	16512-16654	GT	AGG
(GAC)	 AG	16808-17021	GT	AGG
(ACG)	 AG	17137-17312	GT	AGG
(GGG)	 AG	17440-17602	GT	AGG
(GGT)	 AG	17733-17828	GT	AGG
(GAC)	 AG	18011-18127	GT	AGG
(TCC)	 AG	18302-18700	GT	AGG
(GTG)	 AG	18935-18970	GT	AGG
-recovered pasa_asmbl_36730.p1, internal, 15655, 15766
-recovered pasa_asmbl_36730.p1, internal, 15851, 15996
-recovered pasa_asmbl_36730.p1, internal, 16512, 16654
-recovered pasa_asmbl_36730.p1, internal, 16808, 17021
-recovered pasa_asmbl_36730.p1, internal, 17137, 17312
-recovered pasa_asmbl_36730.p1, internal, 17440, 17602
-recovered pasa_asmbl_36730.p1, internal, 17733, 17828
-recovered pasa_asmbl_36730.p1, internal, 18011, 18127
-recovered pasa_asmbl_36730.p1, internal, 18302, 18700
-recovered pasa_asmbl_36730.p1, internal, 18935, 18970
Valid prediction for pasa_asmbl_36723.p1
Valid prediction for CodingQuarry_transcript_41759-T1
Valid prediction for snap_scaffold_27-snap.189-T1
Valid prediction for snap_scaffold_27-snap.207-T1
Valid prediction for GlimmerHMM_glimmerT_56589-T1
Valid prediction for GlimmerHMM_glimmerT_56584-T1
Valid prediction for snap_scaffold_27-snap.191-T1
Valid prediction for GlimmerHMM_glimmerT_56578-T1
Couldn't classify 14170, 14391
Couldn't classify 14599, 15000
Sorry, prediction pasa_asmbl_36731.p1 fails validation.
(AAC)	 CC	14170-14391	GT	AGG
(GTA)	 AG	14599-15000	CC	CCC
Valid prediction for snap_scaffold_27-snap.193-T1
Valid prediction for GlimmerHMM_glimmerT_56596-T1
Valid prediction for snap_scaffold_27-snap.197-T1
Valid prediction for pasa_asmbl_36728.p1
Valid prediction for Augustus_model.g37505.t1
Valid prediction for snap_scaffold_27-snap.206-T1
Couldn't classify 7373, 7497
Couldn't classify 13942, 13965
Sorry, prediction pasa_asmbl_36733.p1 fails validation.
(GCG)	 AA	7373-7497	GT	AAG
(CCG)	 AG	8161-8308	GT	AGG
(GTG)	 AG	9033-9180	GT	AGG
(GGA)	 AG	10160-10393	GT	AGG
(GGC)	 AG	10617-10711	GT	TGG
(GAT)	 AG	10950-11187	GT	AGG
(GAG)	 AG	11514-11705	GT	AGG
(GAG)	 AG	11891-12000	GT	TGG
(GAG)	 AG	12091-12178	GT	AGG
(GTG)	 AG	12350-12477	GT	AGG
(GAT)	 AG	12880-13023	GT	AGG
(GCT)	 AG	13942-13965	CT	CGC
-recovered pasa_asmbl_36733.p1, internal, 8161, 8308
-recovered pasa_asmbl_36733.p1, internal, 9033, 9180
-recovered pasa_asmbl_36733.p1, internal, 10160, 10393
-recovered pasa_asmbl_36733.p1, internal, 10617, 10711
-recovered pasa_asmbl_36733.p1, internal, 10950, 11187
-recovered pasa_asmbl_36733.p1, internal, 11514, 11705
-recovered pasa_asmbl_36733.p1, internal, 11891, 12000
-recovered pasa_asmbl_36733.p1, internal, 12091, 12178
-recovered pasa_asmbl_36733.p1, internal, 12350, 12477
-recovered pasa_asmbl_36733.p1, internal, 12880, 13023
Valid prediction for GlimmerHMM_glimmerT_56599-T1
Valid prediction for snap_scaffold_27-snap.210-T1
Valid prediction for GlimmerHMM_glimmerT_56597-T1
Valid prediction for GlimmerHMM_glimmerT_56598-T1
Valid prediction for GlimmerHMM_glimmerT_56591-T1
Valid prediction for CodingQuarry_transcript_41756-T1
Valid prediction for snap_scaffold_27-snap.205-T1
Valid prediction for CodingQuarry_transcript_41758-T1
Valid prediction for snap_scaffold_27-snap.201-T1
Valid prediction for Augustus_model.g37496.t1
Valid prediction for GlimmerHMM_glimmerT_56583-T1
Valid prediction for snap_scaffold_27-snap.177-T1
Valid prediction for CodingQuarry_transcript_41760-T1
Valid prediction for snap_scaffold_27-snap.217-T1
Valid prediction for HiQ_model.g37503.t1
Valid prediction for pasa_asmbl_36715.p1
Valid prediction for snap_scaffold_27-snap.209-T1
Valid prediction for snap_scaffold_27-snap.218-T1
Valid prediction for snap_scaffold_27-snap.185-T1
Valid prediction for snap_scaffold_27-snap.178-T1
Valid prediction for GlimmerHMM_glimmerT_56585-T1
Valid prediction for CodingQuarry_transcript_41757-T1
Valid prediction for GlimmerHMM_glimmerT_56581-T1
Valid prediction for snap_scaffold_27-snap.179-T1
Valid prediction for Augustus_model.g37495.t1
Valid prediction for GlimmerHMM_glimmerT_56580-T1
Valid prediction for snap_scaffold_27-snap.196-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 41656, rend_intergenic: 33771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72966, rend_intergenic: 71439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73557, rend_intergenic: 73021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90242, rend_intergenic: 78170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106722, rend_intergenic: 100093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122316, rend_intergenic: 111771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143140, rend_intergenic: 142121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155378, rend_intergenic: 145324  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156219, rend_intergenic: 155652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162626, rend_intergenic: 159767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170578, rend_intergenic: 167930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187689, rend_intergenic: 184299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199292, rend_intergenic: 197144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219629, rend_intergenic: 212206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 225098
-exon list size: 368


building trellis

0.3    
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1.1    
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4.6    
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6.8    
7.0    
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10.5    
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11.6    
11.9    
12.2    
12.4    
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13.0    
13.2    
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13.8    
14.1    
14.3    
14.6    
14.9    
15.1    
15.4    
15.7    
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16.5    
16.8    
17.0    
17.3    
17.6    
17.8    
18.1    
18.4    
18.6    
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19.5    
19.7    
20.0    
20.3    
20.5    
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21.6    
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27.0    
27.3    
27.6    
27.8    
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28.4    
28.6    
28.9    
29.2    
29.5    
29.7    
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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46.8    
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    
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53.0    
53.2    
53.5    
53.8    
54.1    
54.3    
54.6    
54.9    
55.1    
55.4    
55.7    
55.9    
56.2    
56.5    
56.8    
57.0    
57.3    
57.6    
57.8    
58.1    
58.4    
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60.3    
60.5    
60.8    
61.1    
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61.6    
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64.3    
64.6    
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74.6    
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77.0    
77.3    
77.6    
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78.1    
78.4    
78.6    
78.9    
79.2    
79.5    
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80.0    
80.3    
80.5    
80.8    
81.1    
81.4    
81.6    
81.9    
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    
86.8    
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    
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93.0    
93.2    
93.5    
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94.6    
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95.4    
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95.9    
96.2    
96.5    
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97.0    
97.3    
97.6    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 41656, rend_intergenic: 33771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72966, rend_intergenic: 71439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73557, rend_intergenic: 73021  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 90242, rend_intergenic: 78170  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106722, rend_intergenic: 100093  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122316, rend_intergenic: 111771  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143140, rend_intergenic: 142121  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155378, rend_intergenic: 145324  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156219, rend_intergenic: 155652  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162626, rend_intergenic: 159767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170578, rend_intergenic: 167930  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187689, rend_intergenic: 184299  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199292, rend_intergenic: 197144  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219629, rend_intergenic: 212206  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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