-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_154424-335643

-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_26-snap.40-T1
Valid prediction for snap_scaffold_26-snap.53-T1
Valid prediction for GlimmerHMM_glimmerT_54941-T1
Valid prediction for snap_scaffold_26-snap.48-T1
Valid prediction for Augustus_model.g36454.t1
Valid prediction for Augustus_model.g36444.t1
Valid prediction for GlimmerHMM_glimmerT_54944-T1
Valid prediction for snap_scaffold_26-snap.47-T1
Valid prediction for snap_scaffold_26-snap.64-T1
Valid prediction for Augustus_model.g36443.t1
Valid prediction for snap_scaffold_26-snap.55-T1
Valid prediction for Augustus_model.g36453.t1
Valid prediction for GlimmerHMM_glimmerT_54939-T1
Valid prediction for GlimmerHMM_glimmerT_54935-T1
Valid prediction for snap_scaffold_26-snap.57-T1
Valid prediction for snap_scaffold_26-snap.69-T1
Valid prediction for GlimmerHMM_glimmerT_54936-T1
Valid prediction for GlimmerHMM_glimmerT_54934-T1
Valid prediction for GlimmerHMM_glimmerT_54928-T1
Valid prediction for GlimmerHMM_glimmerT_54932-T1
Valid prediction for snap_scaffold_26-snap.61-T1
Valid prediction for snap_scaffold_26-snap.65-T1
Valid prediction for snap_scaffold_26-snap.62-T1
Valid prediction for GlimmerHMM_glimmerT_54952-T1
Valid prediction for GlimmerHMM_glimmerT_54930-T1
Valid prediction for GlimmerHMM_glimmerT_54948-T1
Valid prediction for snap_scaffold_26-snap.52-T1
Valid prediction for GlimmerHMM_glimmerT_54943-T1
Valid prediction for snap_scaffold_26-snap.44-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_54951-T1
Valid prediction for GlimmerHMM_glimmerT_54949-T1
Valid prediction for snap_scaffold_26-snap.38-T1
Valid prediction for snap_scaffold_26-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 snap_scaffold_26-snap.51-T1
Valid prediction for GlimmerHMM_glimmerT_54953-T1
Valid prediction for GlimmerHMM_glimmerT_54950-T1
Valid prediction for Augustus_model.g36451.t1
Couldn't classify 163043, 163069
Sorry, prediction pasa_asmbl_35905.p1 fails validation.
(GTG)	 GT	163043-163069	GT	AGG
(GTG)	 AG	164556-164858	GG	GAG
-recovered pasa_asmbl_35905.p1, terminal, 164556, 164858
Valid prediction for snap_scaffold_26-snap.59-T1
Valid prediction for snap_scaffold_26-snap.58-T1
Valid prediction for Augustus_model.g36450.t1
Valid prediction for snap_scaffold_26-snap.60-T1
Valid prediction for snap_scaffold_26-snap.50-T1
Valid prediction for GlimmerHMM_glimmerT_54945-T1
Valid prediction for snap_scaffold_26-snap.70-T1
Couldn't classify 110711, 110764
Couldn't classify 113679, 113782
Sorry, prediction pasa_asmbl_35380.p1 fails validation.
(AGC)	 AG	110711-110764	GT	GGG
(GAT)	 AG	111142-111266	GT	TTG
(TGA)	 AG	111893-111995	GT	TAG
(ACA)	 AG	112934-113471	GT	AGG
(AGT)	 AG	113679-113782	GT	AGG
-recovered pasa_asmbl_35380.p1, internal, 110711, 110764
-recovered pasa_asmbl_35380.p1, internal, 111142, 111266
-recovered pasa_asmbl_35380.p1, internal, 111893, 111995
-recovered pasa_asmbl_35380.p1, internal, 112934, 113471
-recovered pasa_asmbl_35380.p1, internal, 113679, 113782
Valid prediction for GlimmerHMM_glimmerT_54933-T1
Valid prediction for GlimmerHMM_glimmerT_54946-T1
Valid prediction for Augustus_model.g36449.t1
Valid prediction for GlimmerHMM_glimmerT_54929-T1
Valid prediction for snap_scaffold_26-snap.46-T1
Valid prediction for snap_scaffold_26-snap.63-T1
Valid prediction for snap_scaffold_26-snap.43-T1
Valid prediction for snap_scaffold_26-snap.42-T1
Valid prediction for GlimmerHMM_glimmerT_54938-T1
Valid prediction for snap_scaffold_26-snap.68-T1
Valid prediction for Augustus_model.g36452.t1
Valid prediction for GlimmerHMM_glimmerT_54931-T1
Couldn't classify 157338, 157394
Couldn't classify 159561, 159644
Sorry, prediction pasa_asmbl_35376.p1 fails validation.
(GTG)	 AG	157338-157394	GT	TGG
(GTG)	 AG	158647-158757	GT	TGG
(AGC)	 AG	158991-159110	GT	AGG
(AAG)	 AG	159318-159425	GT	TGG
(GAT)	 AG	159561-159644	CT	TAC
-recovered pasa_asmbl_35376.p1, internal, 157338, 157394
-recovered pasa_asmbl_35376.p1, internal, 158647, 158757
-recovered pasa_asmbl_35376.p1, internal, 158991, 159110
-recovered pasa_asmbl_35376.p1, internal, 159318, 159425
Valid prediction for Augustus_model.g36448.t1
Valid prediction for GlimmerHMM_glimmerT_54937-T1
Valid prediction for snap_scaffold_26-snap.56-T1
Valid prediction for GlimmerHMM_glimmerT_54940-T1
Valid prediction for Augustus_model.g36455.t1
Valid prediction for Augustus_model.g36447.t1
Valid prediction for Augustus_model.g36445.t1
Valid prediction for snap_scaffold_26-snap.49-T1
Couldn't classify 121890, 121899
Couldn't classify 125243, 125414
Sorry, prediction pasa_asmbl_35378.p1 fails validation.
(AAC)	 AT	121890-121899	GT	AGG
(AGA)	 AG	122134-122239	GT	AGG
(GGA)	 AG	122832-122941	GT	AGG
(CTG)	 AG	123900-123963	GT	GGG
(AGC)	 AG	124212-124362	GT	AGG
(GTG)	 AG	124453-124561	GT	GGG
(TGT)	 AG	124710-124929	GT	AGG
(GGC)	 AG	125243-125414	GT	TGG
-recovered pasa_asmbl_35378.p1, internal, 122134, 122239
-recovered pasa_asmbl_35378.p1, internal, 122832, 122941
-recovered pasa_asmbl_35378.p1, internal, 123900, 123963
-recovered pasa_asmbl_35378.p1, internal, 124212, 124362
-recovered pasa_asmbl_35378.p1, internal, 124453, 124561
-recovered pasa_asmbl_35378.p1, internal, 124710, 124929
-recovered pasa_asmbl_35378.p1, internal, 125243, 125414
Valid prediction for snap_scaffold_26-snap.54-T1
Valid prediction for GlimmerHMM_glimmerT_54954-T1
Valid prediction for snap_scaffold_26-snap.45-T1
Valid prediction for Augustus_model.g36446.t1
Valid prediction for snap_scaffold_26-snap.41-T1
Valid prediction for GlimmerHMM_glimmerT_54947-T1
Valid prediction for snap_scaffold_26-snap.66-T1
Valid prediction for snap_scaffold_26-snap.39-T1
Valid prediction for GlimmerHMM_glimmerT_54942-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5095, rend_intergenic: 2725  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14049, rend_intergenic: 7054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28329, rend_intergenic: 18844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49647, rend_intergenic: 47667  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57044, rend_intergenic: 52584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88414, rend_intergenic: 57131  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93963, rend_intergenic: 88576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97691, rend_intergenic: 95681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108472, rend_intergenic: 103587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122370, rend_intergenic: 114755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139873, rend_intergenic: 136469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145035, rend_intergenic: 142049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151434, rend_intergenic: 146047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156203, rend_intergenic: 156089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161753, rend_intergenic: 156837  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170664, rend_intergenic: 163870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 181220
-exon list size: 328


building trellis

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29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
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34.5    
34.8    
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35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
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37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.7    
40.0    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
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59.1    
59.4    
59.7    
60.0    
60.3    
60.6    
60.9    
61.2    
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62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
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65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
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70.6    
70.9    
71.2    
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71.8    
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74.8    
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77.0    
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77.6    
77.9    
78.2    
78.5    
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79.4    
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80.0    
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80.6    
80.9    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
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83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.2    
85.5    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.8    
89.1    
89.4    
89.7    
90.0    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 22 predictions from path traversal
Error with prediction: snap lend_intergenic: 5095, rend_intergenic: 2725  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 14049, rend_intergenic: 7054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28329, rend_intergenic: 18844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49647, rend_intergenic: 47667  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57044, rend_intergenic: 52584  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 88414, rend_intergenic: 57131  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 93963, rend_intergenic: 88576  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97691, rend_intergenic: 95681  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108472, rend_intergenic: 103587  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122370, rend_intergenic: 114755  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139873, rend_intergenic: 136469  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145035, rend_intergenic: 142049  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151434, rend_intergenic: 146047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156203, rend_intergenic: 156089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161753, rend_intergenic: 156837  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 170664, rend_intergenic: 163870  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 170505 - 181220
-exon list size: 3


building trellis

20.0    
40.0    
60.0    
80.0    
-found 1 predictions from path traversal
GOT 5prime partial gene.

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