-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_5/scaffold_5_17722419-17919619

-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 GlimmerHMM_glimmerT_13578-T1
Valid prediction for snap_scaffold_5-snap.3299-T1
Valid prediction for snap_scaffold_5-snap.3296-T1
Valid prediction for GlimmerHMM_glimmerT_13569-T1
Valid prediction for snap_scaffold_5-snap.3308-T1
Valid prediction for GlimmerHMM_glimmerT_13585-T1
Valid prediction for snap_scaffold_5-snap.3315-T1
Valid prediction for Augustus_model.g9021.t1
Valid prediction for snap_scaffold_5-snap.3305-T1
Valid prediction for snap_scaffold_5-snap.3319-T1
Valid prediction for GlimmerHMM_glimmerT_13583-T1
Valid prediction for GlimmerHMM_glimmerT_13572-T1
Valid prediction for snap_scaffold_5-snap.3322-T1
Valid prediction for Augustus_model.g9016.t1
Valid prediction for Augustus_model.g9011.t1
Couldn't classify 93307, 93729
Sorry, prediction pasa_asmbl_46191.p1 fails validation.
(AGC)	 TC	93307-93729	GT	AGG
Valid prediction for snap_scaffold_5-snap.3306-T1
Valid prediction for GlimmerHMM_glimmerT_13567-T1
Valid prediction for snap_scaffold_5-snap.3324-T1
Valid prediction for snap_scaffold_5-snap.3328-T1
Valid prediction for snap_scaffold_5-snap.3298-T1
Valid prediction for GlimmerHMM_glimmerT_13574-T1
Valid prediction for snap_scaffold_5-snap.3325-T1
Valid prediction for snap_scaffold_5-snap.3323-T1
Valid prediction for GlimmerHMM_glimmerT_13575-T1
Valid prediction for snap_scaffold_5-snap.3326-T1
Valid prediction for GlimmerHMM_glimmerT_13579-T1
Valid prediction for Augustus_model.g9012.t1
Valid prediction for GlimmerHMM_glimmerT_13570-T1
Valid prediction for snap_scaffold_5-snap.3313-T1
Valid prediction for snap_scaffold_5-snap.3300-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_13582-T1
Couldn't classify 75633, 75807
Sorry, prediction pasa_asmbl_44816.p1 fails validation.
(ATG)	 TA	74581-74807	GT	AGG
(CAG)	 AG	75633-75807	GT	TGG
-recovered pasa_asmbl_44816.p1, initial, 74581, 74807
-recovered pasa_asmbl_44816.p1, internal, 75633, 75807
Valid prediction for snap_scaffold_5-snap.3311-T1
Valid prediction for Augustus_model.g9015.t1
Valid prediction for snap_scaffold_5-snap.3303-T1
Valid prediction for GlimmerHMM_glimmerT_13573-T1
Valid prediction for GlimmerHMM_glimmerT_13584-T1
Valid prediction for snap_scaffold_5-snap.3301-T1
Valid prediction for snap_scaffold_5-snap.3310-T1
Valid prediction for Augustus_model.g9013.t1
Valid prediction for snap_scaffold_5-snap.3327-T1
Valid prediction for Augustus_model.g9017.t1
Valid prediction for GlimmerHMM_glimmerT_13568-T1
Valid prediction for Augustus_model.g9018.t1
Valid prediction for snap_scaffold_5-snap.3320-T1
Valid prediction for snap_scaffold_5-snap.3304-T1
Valid prediction for Augustus_model.g9009.t1
Valid prediction for snap_scaffold_5-snap.3318-T1
Valid prediction for GlimmerHMM_glimmerT_13581-T1
Valid prediction for snap_scaffold_5-snap.3295-T1
Valid prediction for snap_scaffold_5-snap.3297-T1
Valid prediction for snap_scaffold_5-snap.3302-T1
Valid prediction for GlimmerHMM_glimmerT_13577-T1
Valid prediction for snap_scaffold_5-snap.3321-T1
Couldn't classify 82351, 82434
Couldn't classify 83679, 83820
Sorry, prediction pasa_asmbl_44954.p1 fails validation.
(GAA)	 AG	82351-82434	GT	AGG
(GGG)	 AG	82790-82891	GT	AGG
(GCT)	 AG	83182-83216	GT	AGG
(TTT)	 AG	83679-83820	AA	CCA
-recovered pasa_asmbl_44954.p1, internal, 82351, 82434
-recovered pasa_asmbl_44954.p1, internal, 82790, 82891
-recovered pasa_asmbl_44954.p1, internal, 83182, 83216
Couldn't classify 190639, 190765
Sorry, prediction pasa_asmbl_44812.p1 fails validation.
(ATG)	 AG	189085-189172	GT	TGG
(GTG)	 AG	189863-190025	GT	AGG
(GTG)	 AG	190639-190765	GG	ACG
-recovered pasa_asmbl_44812.p1, initial, 189085, 189172
-recovered pasa_asmbl_44812.p1, internal, 189085, 189172
-recovered pasa_asmbl_44812.p1, internal, 189863, 190025
Valid prediction for pasa_asmbl_44814.p1
Valid prediction for snap_scaffold_5-snap.3314-T1
Valid prediction for GlimmerHMM_glimmerT_13571-T1
Valid prediction for Augustus_model.g9020.t1
Valid prediction for Augustus_model.g9010.t1
Valid prediction for GlimmerHMM_glimmerT_13566-T1
Valid prediction for snap_scaffold_5-snap.3329-T1
Valid prediction for GlimmerHMM_glimmerT_13580-T1
Valid prediction for snap_scaffold_5-snap.3312-T1
Valid prediction for snap_scaffold_5-snap.3294-T1
Valid prediction for snap_scaffold_5-snap.3309-T1
Valid prediction for Augustus_model.g9019.t1
Valid prediction for Augustus_model.g9014.t1
Couldn't classify 39761, 39817
Sorry, prediction pasa_asmbl_44818.p1 fails validation.
(GGA)	 TG	39761-39817	GT	AGG
(GTG)	 AG	40286-41410	CA	AGC
-recovered pasa_asmbl_44818.p1, terminal, 40286, 41410
Valid prediction for snap_scaffold_5-snap.3316-T1
Valid prediction for snap_scaffold_5-snap.3317-T1
Valid prediction for GlimmerHMM_glimmerT_13576-T1
Couldn't classify 38286, 38565
Couldn't classify 38738, 39057
Sorry, prediction pasa_asmbl_44819.p1 fails validation.
(GGC)	 TG	38286-38565	GC	CGG
(GCC)	 AG	38738-39057	CA	GCC
Valid prediction for snap_scaffold_5-snap.3307-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 84619, rend_intergenic: 83293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130140, rend_intergenic: 127542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140962, rend_intergenic: 140149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146269, rend_intergenic: 141262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156854, rend_intergenic: 154261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162949, rend_intergenic: 159404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 197201
-exon list size: 251


building trellis

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5.9    
6.3    
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7.1    
7.5    
7.9    
8.3    
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15.4    
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17.0    
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18.6    
19.0    
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20.9    
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22.1    
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22.9    
23.3    
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24.1    
24.5    
24.9    
25.3    
25.7    
26.1    
26.5    
26.9    
27.3    
27.7    
28.1    
28.5    
28.9    
29.2    
29.6    
30.0    
30.4    
30.8    
31.2    
31.6    
32.0    
32.4    
32.8    
33.2    
33.6    
34.0    
34.4    
34.8    
35.2    
35.6    
36.0    
36.4    
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37.2    
37.5    
37.9    
38.3    
38.7    
39.1    
39.5    
39.9    
40.3    
40.7    
41.1    
41.5    
41.9    
42.3    
42.7    
43.1    
43.5    
43.9    
44.3    
44.7    
45.1    
45.5    
45.8    
46.2    
46.6    
47.0    
47.4    
47.8    
48.2    
48.6    
49.0    
49.4    
49.8    
50.2    
50.6    
51.0    
51.4    
51.8    
52.2    
52.6    
53.0    
53.4    
53.8    
54.2    
54.5    
54.9    
55.3    
55.7    
56.1    
56.5    
56.9    
57.3    
57.7    
58.1    
58.5    
58.9    
59.3    
59.7    
60.1    
60.5    
60.9    
61.3    
61.7    
62.1    
62.5    
62.8    
63.2    
63.6    
64.0    
64.4    
64.8    
65.2    
65.6    
66.0    
66.4    
66.8    
67.2    
67.6    
68.0    
68.4    
68.8    
69.2    
69.6    
70.0    
70.4    
70.8    
71.1    
71.5    
71.9    
72.3    
72.7    
73.1    
73.5    
73.9    
74.3    
74.7    
75.1    
75.5    
75.9    
76.3    
76.7    
77.1    
77.5    
77.9    
78.3    
78.7    
79.1    
79.4    
79.8    
80.2    
80.6    
81.0    
81.4    
81.8    
82.2    
82.6    
83.0    
83.4    
83.8    
84.2    
84.6    
85.0    
85.4    
85.8    
86.2    
86.6    
87.0    
87.4    
87.7    
88.1    
88.5    
88.9    
89.3    
89.7    
90.1    
90.5    
90.9    
91.3    
91.7    
92.1    
92.5    
92.9    
93.3    
93.7    
94.1    
94.5    
94.9    
95.3    
95.7    
96.0    
96.4    
96.8    
97.2    
97.6    
98.0    
98.4    
98.8    
99.2    
99.6    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 84619, rend_intergenic: 83293  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130140, rend_intergenic: 127542  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140962, rend_intergenic: 140149  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146269, rend_intergenic: 141262  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156854, rend_intergenic: 154261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162949, rend_intergenic: 159404  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support