-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_13/scaffold_13_12354480-12575721

-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_32523-T1
Valid prediction for Augustus_model.g21743.t1
Valid prediction for Augustus_model.g21738.t1
Valid prediction for GlimmerHMM_glimmerT_32533-T1
Valid prediction for GlimmerHMM_glimmerT_32525-T1
Valid prediction for snap_scaffold_13-snap.2367-T1
Valid prediction for snap_scaffold_13-snap.2341-T1
Valid prediction for Augustus_model.g21736.t1
Valid prediction for snap_scaffold_13-snap.2357-T1
Valid prediction for GlimmerHMM_glimmerT_32531-T1
Valid prediction for snap_scaffold_13-snap.2370-T1
Valid prediction for GlimmerHMM_glimmerT_32543-T1
Valid prediction for snap_scaffold_13-snap.2340-T1
Valid prediction for snap_scaffold_13-snap.2339-T1
Valid prediction for GlimmerHMM_glimmerT_32535-T1
Valid prediction for snap_scaffold_13-snap.2365-T1
Valid prediction for snap_scaffold_13-snap.2353-T1
Valid prediction for snap_scaffold_13-snap.2336-T1
Valid prediction for snap_scaffold_13-snap.2347-T1
Valid prediction for snap_scaffold_13-snap.2345-T1
Valid prediction for GlimmerHMM_glimmerT_32532-T1
Valid prediction for snap_scaffold_13-snap.2364-T1
Valid prediction for snap_scaffold_13-snap.2349-T1
Valid prediction for snap_scaffold_13-snap.2343-T1
Valid prediction for GlimmerHMM_glimmerT_32541-T1
Valid prediction for snap_scaffold_13-snap.2348-T1
Valid prediction for GlimmerHMM_glimmerT_32529-T1
Valid prediction for snap_scaffold_13-snap.2330-T1
Valid prediction for GlimmerHMM_glimmerT_32530-T1
Valid prediction for GlimmerHMM_glimmerT_32527-T1
Valid prediction for Augustus_model.g21735.t1
Valid prediction for snap_scaffold_13-snap.2354-T1
Valid prediction for Augustus_model.g21730.t1
Valid prediction for Augustus_model.g21734.t1
Valid prediction for snap_scaffold_13-snap.2342-T1
Valid prediction for snap_scaffold_13-snap.2360-T1
Valid prediction for snap_scaffold_13-snap.2361-T1
Valid prediction for snap_scaffold_13-snap.2362-T1
Valid prediction for snap_scaffold_13-snap.2344-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_13-snap.2355-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_13-snap.2363-T1
Valid prediction for snap_scaffold_13-snap.2359-T1
Valid prediction for snap_scaffold_13-snap.2369-T1
Valid prediction for GlimmerHMM_glimmerT_32540-T1
Valid prediction for snap_scaffold_13-snap.2346-T1
Valid prediction for snap_scaffold_13-snap.2337-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_13-snap.2352-T1
Valid prediction for Augustus_model.g21731.t1
Valid prediction for GlimmerHMM_glimmerT_32537-T1
Valid prediction for snap_scaffold_13-snap.2334-T1
Valid prediction for snap_scaffold_13-snap.2366-T1
Valid prediction for GlimmerHMM_glimmerT_32538-T1
Valid prediction for snap_scaffold_13-snap.2338-T1
Valid prediction for GlimmerHMM_glimmerT_32528-T1
Valid prediction for snap_scaffold_13-snap.2356-T1
Valid prediction for GlimmerHMM_glimmerT_32522-T1
Valid prediction for snap_scaffold_13-snap.2358-T1
Valid prediction for GlimmerHMM_glimmerT_32526-T1
Valid prediction for GlimmerHMM_glimmerT_32534-T1
Valid prediction for GlimmerHMM_glimmerT_32524-T1
Valid prediction for snap_scaffold_13-snap.2350-T1
Valid prediction for Augustus_model.g21733.t1
Valid prediction for Augustus_model.g21737.t1
Couldn't classify 103931, 104008
Sorry, prediction pasa_asmbl_10136.p1 fails validation.
(AGG)	 TC	103931-104008	GT	AGG
(CAT)	 AG	106240-106401	GT	AGG
(GAC)	 AG	107480-107611	GT	AGG
(GTC)	 AG	108649-108716	GT	CCG
(GTT)	 AG	110687-110814	GT	AGG
(ATG)	 AG	112986-113071	GT	AGG
(TCT)	 AG	113757-113805	GT	TGG
(ACA)	 AG	114242-114345	GT	AGG
(GCC)	 AG	114780-114829	GT	AGG
(ACC)	 AG	115020-115125	AA	AGA
-recovered pasa_asmbl_10136.p1, initial, 112986, 113071
-recovered pasa_asmbl_10136.p1, terminal, 114780, 114829
-recovered pasa_asmbl_10136.p1, terminal, 115020, 115125
-recovered pasa_asmbl_10136.p1, internal, 106240, 106401
-recovered pasa_asmbl_10136.p1, internal, 107480, 107611
-recovered pasa_asmbl_10136.p1, internal, 108649, 108716
-recovered pasa_asmbl_10136.p1, internal, 110687, 110814
-recovered pasa_asmbl_10136.p1, internal, 112986, 113071
-recovered pasa_asmbl_10136.p1, internal, 113757, 113805
-recovered pasa_asmbl_10136.p1, internal, 114242, 114345
-recovered pasa_asmbl_10136.p1, internal, 114780, 114829
Valid prediction for snap_scaffold_13-snap.2331-T1
Valid prediction for GlimmerHMM_glimmerT_32542-T1
Valid prediction for snap_scaffold_13-snap.2351-T1
Valid prediction for snap_scaffold_13-snap.2368-T1
Valid prediction for Augustus_model.g21739.t1
Valid prediction for Augustus_model.g21742.t1
Valid prediction for Augustus_model.g21741.t1
Valid prediction for snap_scaffold_13-snap.2333-T1
Valid prediction for GlimmerHMM_glimmerT_32536-T1
Valid prediction for Augustus_model.g21740.t1
Valid prediction for Augustus_model.g21732.t1
Valid prediction for GlimmerHMM_glimmerT_32539-T1
Valid prediction for snap_scaffold_13-snap.2332-T1
Valid prediction for snap_scaffold_13-snap.2335-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19694, rend_intergenic: 16506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129760, rend_intergenic: 118432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140390, rend_intergenic: 133358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146540, rend_intergenic: 140699  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202657, rend_intergenic: 196255  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 221242
-exon list size: 278


building trellis

0.4    
0.7    
1.1    
1.4    
1.8    
2.1    
2.5    
2.9    
3.2    
3.6    
3.9    
4.3    
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5.0    
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5.7    
6.1    
6.4    
6.8    
7.1    
7.5    
7.9    
8.2    
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9.3    
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13.6    
13.9    
14.3    
14.6    
15.0    
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31.1    
31.4    
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34.3    
34.6    
35.0    
35.4    
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36.1    
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38.2    
38.6    
38.9    
39.3    
39.6    
40.0    
40.4    
40.7    
41.1    
41.4    
41.8    
42.1    
42.5    
42.9    
43.2    
43.6    
43.9    
44.3    
44.6    
45.0    
45.4    
45.7    
46.1    
46.4    
46.8    
47.1    
47.5    
47.9    
48.2    
48.6    
48.9    
49.3    
49.6    
50.0    
50.4    
50.7    
51.1    
51.4    
51.8    
52.1    
52.5    
52.9    
53.2    
53.6    
53.9    
54.3    
54.6    
55.0    
55.4    
55.7    
56.1    
56.4    
56.8    
57.1    
57.5    
57.9    
58.2    
58.6    
58.9    
59.3    
59.6    
60.0    
60.4    
60.7    
61.1    
61.4    
61.8    
62.1    
62.5    
62.9    
63.2    
63.6    
63.9    
64.3    
64.6    
65.0    
65.4    
65.7    
66.1    
66.4    
66.8    
67.1    
67.5    
67.9    
68.2    
68.6    
68.9    
69.3    
69.6    
70.0    
70.4    
70.7    
71.1    
71.4    
71.8    
72.1    
72.5    
72.9    
73.2    
73.6    
73.9    
74.3    
74.6    
75.0    
75.4    
75.7    
76.1    
76.4    
76.8    
77.1    
77.5    
77.9    
78.2    
78.6    
78.9    
79.3    
79.6    
80.0    
80.4    
80.7    
81.1    
81.4    
81.8    
82.1    
82.5    
82.9    
83.2    
83.6    
83.9    
84.3    
84.6    
85.0    
85.4    
85.7    
86.1    
86.4    
86.8    
87.1    
87.5    
87.9    
88.2    
88.6    
88.9    
89.3    
89.6    
90.0    
90.4    
90.7    
91.1    
91.4    
91.8    
92.1    
92.5    
92.9    
93.2    
93.6    
93.9    
94.3    
94.6    
95.0    
95.4    
95.7    
96.1    
96.4    
96.8    
97.1    
97.5    
97.9    
98.2    
98.6    
98.9    
99.3    
99.6    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 19694, rend_intergenic: 16506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 129760, rend_intergenic: 118432  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140390, rend_intergenic: 133358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146540, rend_intergenic: 140699  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 202657, rend_intergenic: 196255  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

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

-building DP trellis

-building trellis in range 1 - 22575
-exon list size: 10


building trellis

8.3    
16.7    
25.0    
33.3    
41.7    
50.0    
58.3    
66.7    
75.0    
83.3    
91.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support
	-no exons in range 1 - 14728