-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_3404533-3541758

-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_17175-T1
Valid prediction for GlimmerHMM_glimmerT_17192-T1
Valid prediction for GlimmerHMM_glimmerT_17184-T1
Valid prediction for snap_scaffold_7-snap.822-T1
Valid prediction for GlimmerHMM_glimmerT_17166-T1
Valid prediction for snap_scaffold_7-snap.809-T1
Valid prediction for snap_scaffold_7-snap.808-T1
Valid prediction for GlimmerHMM_glimmerT_17186-T1
Valid prediction for HiQ_model.g11443.t1
Valid prediction for snap_scaffold_7-snap.813-T1
Valid prediction for GlimmerHMM_glimmerT_17185-T1
Valid prediction for snap_scaffold_7-snap.826-T1
Couldn't classify 25759, 25929
Sorry, prediction pasa_asmbl_49690.p1 fails validation.
(CTG)	 TC	25759-25929	GT	CAG
(GTG)	 AG	26252-26340	GT	ACG
(GTG)	 AG	26453-26481	GT	TCG
(CCT)	 AG	27699-27832	GT	AGG
(CGC)	 AG	27915-27998	GT	AGG
(ACT)	 AG	28118-28203	GT	AGG
(CAC)	 AG	28436-28559	GT	GGG
(GTG)	 AG	28663-28733	GT	AGG
(ACA)	 AG	28863-28965	CC	GAC
-recovered pasa_asmbl_49690.p1, terminal, 28863, 28965
-recovered pasa_asmbl_49690.p1, internal, 26252, 26340
-recovered pasa_asmbl_49690.p1, internal, 26453, 26481
-recovered pasa_asmbl_49690.p1, internal, 27699, 27832
-recovered pasa_asmbl_49690.p1, internal, 27915, 27998
-recovered pasa_asmbl_49690.p1, internal, 28118, 28203
-recovered pasa_asmbl_49690.p1, internal, 28436, 28559
-recovered pasa_asmbl_49690.p1, internal, 28663, 28733
Valid prediction for snap_scaffold_7-snap.817-T1
Valid prediction for snap_scaffold_7-snap.829-T1
Valid prediction for GlimmerHMM_glimmerT_17177-T1
Valid prediction for Augustus_model.g11459.t1
Valid prediction for snap_scaffold_7-snap.828-T1
Valid prediction for Augustus_model.g11457.t1
Valid prediction for snap_scaffold_7-snap.803-T1
Valid prediction for Augustus_model.g11444.t1
Couldn't classify 37267, 37543
Sorry, prediction pasa_asmbl_49692.p1 fails validation.
(TCC)	 TC	37267-37543	GT	CGG
(GCT)	 AG	38469-38651	GT	AGG
(GTA)	 AG	39315-39529	GG	AGG
-recovered pasa_asmbl_49692.p1, terminal, 39315, 39529
-recovered pasa_asmbl_49692.p1, internal, 38469, 38651
Valid prediction for Augustus_model.g11440.t1
Valid prediction for snap_scaffold_7-snap.810-T1
Valid prediction for GlimmerHMM_glimmerT_17163-T1
Valid prediction for Augustus_model.g11446.t1
Valid prediction for GlimmerHMM_glimmerT_17193-T1
Valid prediction for GlimmerHMM_glimmerT_17181-T1
Valid prediction for GlimmerHMM_glimmerT_17187-T1
Valid prediction for snap_scaffold_7-snap.827-T1
Valid prediction for Augustus_model.g11460.t1
Valid prediction for GlimmerHMM_glimmerT_17168-T1
Valid prediction for GlimmerHMM_glimmerT_17174-T1
Valid prediction for snap_scaffold_7-snap.824-T1
Valid prediction for Augustus_model.g11452.t1
Valid prediction for Augustus_model.g11448.t1
Valid prediction for snap_scaffold_7-snap.815-T1
Valid prediction for snap_scaffold_7-snap.820-T1
Valid prediction for snap_scaffold_7-snap.830-T1
Valid prediction for snap_scaffold_7-snap.835-T1
Valid prediction for Augustus_model.g11458.t1
Valid prediction for snap_scaffold_7-snap.821-T1
Valid prediction for Augustus_model.g11450.t1
Valid prediction for GlimmerHMM_glimmerT_17167-T1
Valid prediction for Augustus_model.g11464.t1
Valid prediction for GlimmerHMM_glimmerT_17178-T1
Valid prediction for GlimmerHMM_glimmerT_17170-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_17191-T1
Valid prediction for pasa_asmbl_50799.p1
Valid prediction for snap_scaffold_7-snap.831-T1
Valid prediction for GlimmerHMM_glimmerT_17165-T1
Valid prediction for Augustus_model.g11439.t1
Valid prediction for GlimmerHMM_glimmerT_17188-T1
Valid prediction for snap_scaffold_7-snap.833-T1
Valid prediction for snap_scaffold_7-snap.816-T1
Valid prediction for snap_scaffold_7-snap.801-T1
Valid prediction for Augustus_model.g11462.t1
Valid prediction for GlimmerHMM_glimmerT_17179-T1
Valid prediction for GlimmerHMM_glimmerT_17183-T1
Valid prediction for Augustus_model.g11451.t1
Valid prediction for GlimmerHMM_glimmerT_17172-T1
Valid prediction for snap_scaffold_7-snap.814-T1
Valid prediction for snap_scaffold_7-snap.806-T1
Valid prediction for Augustus_model.g11456.t1
Valid prediction for Augustus_model.g11447.t1
Valid prediction for GlimmerHMM_glimmerT_17189-T1
Valid prediction for snap_scaffold_7-snap.804-T1
Couldn't classify 124329, 124440
Sorry, prediction pasa_asmbl_50795.p1 fails validation.
(GGG)	 GT	124329-124440	GT	GGG
(AAA)	 AG	125542-125684	GT	AGG
(ATT)	 AG	126056-126141	GT	GTG
(AGC)	 AG	127773-127845	GT	AAG
(CAG)	 AG	128215-128371	GT	GGG
(ACA)	 AG	128497-128599	GT	CAG
(GAG)	 AG	129327-129461	GT	AGG
(GGG)	 AG	131208-131346	GT	AGG
(ATC)	 AG	131798-131866	GT	AGG
(ACT)	 AG	132090-132179	GA	GAG
-recovered pasa_asmbl_50795.p1, terminal, 132090, 132179
-recovered pasa_asmbl_50795.p1, internal, 125542, 125684
-recovered pasa_asmbl_50795.p1, internal, 126056, 126141
-recovered pasa_asmbl_50795.p1, internal, 127773, 127845
-recovered pasa_asmbl_50795.p1, internal, 128215, 128371
-recovered pasa_asmbl_50795.p1, internal, 128497, 128599
-recovered pasa_asmbl_50795.p1, internal, 129327, 129461
-recovered pasa_asmbl_50795.p1, internal, 131208, 131346
-recovered pasa_asmbl_50795.p1, internal, 131798, 131866
Valid prediction for Augustus_model.g11441.t1
Valid prediction for snap_scaffold_7-snap.812-T1
Valid prediction for Augustus_model.g11454.t1
Couldn't classify 14841, 15266
Sorry, prediction pasa_asmbl_50800.p1 fails validation.
(GGG)	 AC	14841-15266	AT	AAA
Valid prediction for snap_scaffold_7-snap.819-T1
Valid prediction for GlimmerHMM_glimmerT_17173-T1
Valid prediction for GlimmerHMM_glimmerT_17180-T1
Valid prediction for snap_scaffold_7-snap.807-T1
Valid prediction for snap_scaffold_7-snap.832-T1
Valid prediction for Augustus_model.g11463.t1
Valid prediction for GlimmerHMM_glimmerT_17182-T1
Valid prediction for snap_scaffold_7-snap.802-T1
Valid prediction for Augustus_model.g11449.t1
Valid prediction for CodingQuarry_transcript_57466-T1
Valid prediction for GlimmerHMM_glimmerT_17164-T1
Valid prediction for snap_scaffold_7-snap.805-T1
Valid prediction for snap_scaffold_7-snap.823-T1
Valid prediction for Augustus_model.g11461.t1
Valid prediction for pasa_asmbl_50796.p1
Valid prediction for Augustus_model.g11442.t1
Valid prediction for snap_scaffold_7-snap.825-T1
Valid prediction for GlimmerHMM_glimmerT_17190-T1
Valid prediction for Augustus_model.g11453.t1
Valid prediction for Augustus_model.g11455.t1
Valid prediction for snap_scaffold_7-snap.834-T1
Valid prediction for snap_scaffold_7-snap.818-T1
Valid prediction for Augustus_model.g11445.t1
Valid prediction for GlimmerHMM_glimmerT_17171-T1
Valid prediction for GlimmerHMM_glimmerT_17169-T1
Valid prediction for GlimmerHMM_glimmerT_17162-T1
Valid prediction for snap_scaffold_7-snap.811-T1
Valid prediction for GlimmerHMM_glimmerT_17176-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9579, rend_intergenic: 7546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39529, rend_intergenic: 37283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 137226
-exon list size: 270


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.6    
2.9    
3.3    
3.7    
4.0    
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4.8    
5.1    
5.5    
5.9    
6.2    
6.6    
7.0    
7.4    
7.7    
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9.2    
9.6    
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10.3    
10.7    
11.0    
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11.8    
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12.5    
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13.2    
13.6    
14.0    
14.3    
14.7    
15.1    
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15.8    
16.2    
16.5    
16.9    
17.3    
17.6    
18.0    
18.4    
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19.1    
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20.6    
21.0    
21.3    
21.7    
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22.4    
22.8    
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24.6    
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25.7    
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26.5    
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27.6    
27.9    
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28.7    
29.0    
29.4    
29.8    
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30.9    
31.2    
31.6    
32.0    
32.4    
32.7    
33.1    
33.5    
33.8    
34.2    
34.6    
34.9    
35.3    
35.7    
36.0    
36.4    
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37.1    
37.5    
37.9    
38.2    
38.6    
39.0    
39.3    
39.7    
40.1    
40.4    
40.8    
41.2    
41.5    
41.9    
42.3    
42.6    
43.0    
43.4    
43.8    
44.1    
44.5    
44.9    
45.2    
45.6    
46.0    
46.3    
46.7    
47.1    
47.4    
47.8    
48.2    
48.5    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.5    
51.8    
52.2    
52.6    
52.9    
53.3    
53.7    
54.0    
54.4    
54.8    
55.1    
55.5    
55.9    
56.2    
56.6    
57.0    
57.4    
57.7    
58.1    
58.5    
58.8    
59.2    
59.6    
59.9    
60.3    
60.7    
61.0    
61.4    
61.8    
62.1    
62.5    
62.9    
63.2    
63.6    
64.0    
64.3    
64.7    
65.1    
65.4    
65.8    
66.2    
66.5    
66.9    
67.3    
67.6    
68.0    
68.4    
68.8    
69.1    
69.5    
69.9    
70.2    
70.6    
71.0    
71.3    
71.7    
72.1    
72.4    
72.8    
73.2    
73.5    
73.9    
74.3    
74.6    
75.0    
75.4    
75.7    
76.1    
76.5    
76.8    
77.2    
77.6    
77.9    
78.3    
78.7    
79.0    
79.4    
79.8    
80.1    
80.5    
80.9    
81.2    
81.6    
82.0    
82.4    
82.7    
83.1    
83.5    
83.8    
84.2    
84.6    
84.9    
85.3    
85.7    
86.0    
86.4    
86.8    
87.1    
87.5    
87.9    
88.2    
88.6    
89.0    
89.3    
89.7    
90.1    
90.4    
90.8    
91.2    
91.5    
91.9    
92.3    
92.6    
93.0    
93.4    
93.8    
94.1    
94.5    
94.9    
95.2    
95.6    
96.0    
96.3    
96.7    
97.1    
97.4    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 37 predictions from path traversal
Error with prediction: snap lend_intergenic: 9579, rend_intergenic: 7546  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39529, rend_intergenic: 37283  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 37 predictions persist after filtering for low support