-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_15047096-15255003

-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_16-snap.2929-T1
Valid prediction for snap_scaffold_16-snap.2903-T1
Valid prediction for snap_scaffold_16-snap.2914-T1
Valid prediction for snap_scaffold_16-snap.2894-T1
Valid prediction for snap_scaffold_16-snap.2906-T1
Valid prediction for GlimmerHMM_glimmerT_39544-T1
Valid prediction for snap_scaffold_16-snap.2928-T1
Valid prediction for snap_scaffold_16-snap.2913-T1
Valid prediction for GlimmerHMM_glimmerT_39548-T1
Valid prediction for snap_scaffold_16-snap.2921-T1
Couldn't classify 175713, 175790
Sorry, prediction pasa_asmbl_16722.p1 fails validation.
(GTT)	 CA	175713-175790	GT	AGG
(CAC)	 AG	176451-176594	GT	AGG
(TCC)	 AG	176767-176866	GT	AGG
(GTC)	 AG	177517-177676	GT	TGG
(TTC)	 AG	177964-178054	GT	AGG
(GAG)	 AG	178221-178364	GT	AGG
(TCT)	 AG	178444-178663	GT	AGG
(ACA)	 AG	178996-179081	GT	AAG
(AGC)	 AG	180722-180862	AG	AAA
-recovered pasa_asmbl_16722.p1, terminal, 180722, 180862
-recovered pasa_asmbl_16722.p1, internal, 176451, 176594
-recovered pasa_asmbl_16722.p1, internal, 176767, 176866
-recovered pasa_asmbl_16722.p1, internal, 177517, 177676
-recovered pasa_asmbl_16722.p1, internal, 177964, 178054
-recovered pasa_asmbl_16722.p1, internal, 178221, 178364
-recovered pasa_asmbl_16722.p1, internal, 178444, 178663
-recovered pasa_asmbl_16722.p1, internal, 178996, 179081
Valid prediction for GlimmerHMM_glimmerT_39530-T1
Valid prediction for GlimmerHMM_glimmerT_39550-T1
Valid prediction for GlimmerHMM_glimmerT_39535-T1
Valid prediction for CodingQuarry_transcript_20141-T1
Valid prediction for snap_scaffold_16-snap.2897-T1
Valid prediction for snap_scaffold_16-snap.2920-T1
Valid prediction for CodingQuarry_transcript_20142-T1
Valid prediction for snap_scaffold_16-snap.2933-T1
Valid prediction for GlimmerHMM_glimmerT_39540-T1
Valid prediction for CodingQuarry_transcript_20143-T1
Valid prediction for snap_scaffold_16-snap.2932-T1
Valid prediction for pasa_asmbl_16725.p1
Couldn't classify 127204, 127257
Sorry, prediction pasa_asmbl_16716.p1 fails validation.
(ACA)	 GC	127204-127257	GT	TGG
(GTG)	 AG	127683-127767	GT	AGG
(GAA)	 AG	128373-128474	GT	AGG
(CTA)	 AG	128804-128891	GT	AGG
(TCT)	 AG	129026-129086	TG	GAT
-recovered pasa_asmbl_16716.p1, terminal, 128373, 128474
-recovered pasa_asmbl_16716.p1, terminal, 129026, 129086
-recovered pasa_asmbl_16716.p1, internal, 127683, 127767
-recovered pasa_asmbl_16716.p1, internal, 128373, 128474
-recovered pasa_asmbl_16716.p1, internal, 128804, 128891
Valid prediction for snap_scaffold_16-snap.2911-T1
Valid prediction for GlimmerHMM_glimmerT_39533-T1
Valid prediction for snap_scaffold_16-snap.2901-T1
Valid prediction for GlimmerHMM_glimmerT_39538-T1
Valid prediction for snap_scaffold_16-snap.2923-T1
Valid prediction for GlimmerHMM_glimmerT_39531-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_39549-T1
Valid prediction for GlimmerHMM_glimmerT_39542-T1
Valid prediction for snap_scaffold_16-snap.2925-T1
Valid prediction for snap_scaffold_16-snap.2916-T1
Valid prediction for snap_scaffold_16-snap.2936-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.2895-T1
Valid prediction for snap_scaffold_16-snap.2909-T1
Valid prediction for GlimmerHMM_glimmerT_39537-T1
Valid prediction for snap_scaffold_16-snap.2900-T1
Valid prediction for snap_scaffold_16-snap.2917-T1
Valid prediction for snap_scaffold_16-snap.2938-T1
Valid prediction for pasa_asmbl_16721.p1
Valid prediction for GlimmerHMM_glimmerT_39551-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_16-snap.2931-T1
Valid prediction for snap_scaffold_16-snap.2915-T1
Valid prediction for GlimmerHMM_glimmerT_39552-T1
Valid prediction for snap_scaffold_16-snap.2918-T1
Valid prediction for snap_scaffold_16-snap.2905-T1
Valid prediction for snap_scaffold_16-snap.2902-T1
Valid prediction for snap_scaffold_16-snap.2927-T1
Valid prediction for snap_scaffold_16-snap.2893-T1
Valid prediction for snap_scaffold_16-snap.2907-T1
Valid prediction for GlimmerHMM_glimmerT_39534-T1
Valid prediction for snap_scaffold_16-snap.2924-T1
Valid prediction for snap_scaffold_16-snap.2922-T1
Valid prediction for GlimmerHMM_glimmerT_39529-T1
Valid prediction for snap_scaffold_16-snap.2904-T1
Valid prediction for pasa_asmbl_17548.p1
Valid prediction for snap_scaffold_16-snap.2934-T1
Valid prediction for snap_scaffold_16-snap.2939-T1
Valid prediction for snap_scaffold_16-snap.2899-T1
Valid prediction for snap_scaffold_16-snap.2898-T1
Valid prediction for snap_scaffold_16-snap.2910-T1
Valid prediction for GlimmerHMM_glimmerT_39543-T1
Valid prediction for GlimmerHMM_glimmerT_39553-T1
Valid prediction for snap_scaffold_16-snap.2908-T1
Valid prediction for GlimmerHMM_glimmerT_39539-T1
Valid prediction for snap_scaffold_16-snap.2937-T1
Valid prediction for snap_scaffold_16-snap.2935-T1
Valid prediction for snap_scaffold_16-snap.2896-T1
Valid prediction for GlimmerHMM_glimmerT_39547-T1
Valid prediction for GlimmerHMM_glimmerT_39546-T1
Valid prediction for CodingQuarry_transcript_20145-T1
Valid prediction for GlimmerHMM_glimmerT_39536-T1
Valid prediction for pasa_asmbl_17501.p1
Valid prediction for snap_scaffold_16-snap.2930-T1
Valid prediction for GlimmerHMM_glimmerT_39532-T1
Valid prediction for snap_scaffold_16-snap.2926-T1
Valid prediction for GlimmerHMM_glimmerT_39545-T1
Valid prediction for snap_scaffold_16-snap.2912-T1
Valid prediction for GlimmerHMM_glimmerT_39541-T1
Valid prediction for snap_scaffold_16-snap.2919-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8096, rend_intergenic: 2114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13499, rend_intergenic: 9568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19340, rend_intergenic: 14644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25961, rend_intergenic: 21098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33629, rend_intergenic: 28790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45632, rend_intergenic: 44878  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69616, rend_intergenic: 48986  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73993, rend_intergenic: 69914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102065, rend_intergenic: 84513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107276, rend_intergenic: 102288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132064, rend_intergenic: 130240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138897, rend_intergenic: 134575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141002, rend_intergenic: 139104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151700, rend_intergenic: 144623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163953, rend_intergenic: 152878  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166020, rend_intergenic: 164155  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179692, rend_intergenic: 169499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193219, rend_intergenic: 186927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196914, rend_intergenic: 194977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199018, rend_intergenic: 197120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200371, rend_intergenic: 199540  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 207908
-exon list size: 342


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.7    
2.0    
2.3    
2.6    
2.9    
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3.5    
3.8    
4.1    
4.4    
4.7    
4.9    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
7.8    
8.1    
8.4    
8.7    
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9.9    
10.2    
10.5    
10.8    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.8    
33.1    
33.4    
33.7    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
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42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.3    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.7    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.3    
66.6    
66.9    
67.2    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.3    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.7    
77.0    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.1    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.4    
97.7    
98.0    
98.3    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 35 predictions from path traversal
Error with prediction: snap lend_intergenic: 8096, rend_intergenic: 2114  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13499, rend_intergenic: 9568  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19340, rend_intergenic: 14644  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 25961, rend_intergenic: 21098  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33629, rend_intergenic: 28790  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45632, rend_intergenic: 44878  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 69616, rend_intergenic: 48986  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 73993, rend_intergenic: 69914  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102065, rend_intergenic: 84513  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 107276, rend_intergenic: 102288  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 132064, rend_intergenic: 130240  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138897, rend_intergenic: 134575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141002, rend_intergenic: 139104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 151700, rend_intergenic: 144623  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163953, rend_intergenic: 152878  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 166020, rend_intergenic: 164155  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179692, rend_intergenic: 169499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193219, rend_intergenic: 186927  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 196914, rend_intergenic: 194977  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 199018, rend_intergenic: 197120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 200371, rend_intergenic: 199540  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support