-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_24/scaffold_24_5617056-5810752

-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_24-snap.1151-T1
Valid prediction for GlimmerHMM_glimmerT_53849-T1
Valid prediction for snap_scaffold_24-snap.1137-T1
Valid prediction for snap_scaffold_24-snap.1134-T1
Valid prediction for Augustus_model.g36039.t1
Valid prediction for snap_scaffold_24-snap.1130-T1
Valid prediction for snap_scaffold_24-snap.1133-T1
Valid prediction for GeneMark_model.93910_t
Valid prediction for snap_scaffold_24-snap.1145-T1
Valid prediction for GlimmerHMM_glimmerT_53852-T1
Valid prediction for GeneMark_model.93872_t
Valid prediction for GeneMark_model.93897_t
Valid prediction for GlimmerHMM_glimmerT_53845-T1
Valid prediction for GeneMark_model.93908_t
Valid prediction for GlimmerHMM_glimmerT_53855-T1
Valid prediction for GeneMark_model.93906_t
Valid prediction for snap_scaffold_24-snap.1140-T1
Valid prediction for Augustus_model.g36044.t1
Valid prediction for GeneMark_model.93882_t
Valid prediction for Augustus_model.g36042.t1
Valid prediction for GeneMark_model.93895_t
Valid prediction for snap_scaffold_24-snap.1112-T1
Valid prediction for GeneMark_model.93902_t
Valid prediction for GeneMark_model.93890_t
Valid prediction for GeneMark_model.93864_t
Valid prediction for Augustus_model.g36037.t1
Valid prediction for GeneMark_model.93896_t
Valid prediction for snap_scaffold_24-snap.1120-T1
Valid prediction for GlimmerHMM_glimmerT_53840-T1
Valid prediction for snap_scaffold_24-snap.1121-T1
Valid prediction for GlimmerHMM_glimmerT_53837-T1
Valid prediction for GlimmerHMM_glimmerT_53848-T1
Valid prediction for GeneMark_model.93867_t
Valid prediction for GeneMark_model.93865_t
Valid prediction for GeneMark_model.93899_t
Valid prediction for GeneMark_model.93900_t
Valid prediction for Augustus_model.g36031.t1
Valid prediction for snap_scaffold_24-snap.1118-T1
Valid prediction for GeneMark_model.93862_t
Valid prediction for GeneMark_model.93877_t
Valid prediction for snap_scaffold_24-snap.1119-T1
Valid prediction for GlimmerHMM_glimmerT_53833-T1
Valid prediction for Augustus_model.g36043.t1
Valid prediction for GeneMark_model.93904_t
Valid prediction for snap_scaffold_24-snap.1128-T1
Valid prediction for Augustus_model.g36045.t1
Valid prediction for snap_scaffold_24-snap.1143-T1
Valid prediction for snap_scaffold_24-snap.1150-T1
Valid prediction for GlimmerHMM_glimmerT_53834-T1
Valid prediction for GlimmerHMM_glimmerT_53842-T1
Valid prediction for GeneMark_model.93887_t
Valid prediction for Augustus_model.g36030.t1
Valid prediction for snap_scaffold_24-snap.1135-T1
Valid prediction for GeneMark_model.93881_t
Valid prediction for snap_scaffold_24-snap.1142-T1
Valid prediction for snap_scaffold_24-snap.1124-T1
Valid prediction for Augustus_model.g36046.t1
Valid prediction for pasa_asmbl_32240.p1
Valid prediction for GeneMark_model.93875_t
Valid prediction for snap_scaffold_24-snap.1139-T1
Valid prediction for GeneMark_model.93892_t
Valid prediction for Augustus_model.g36036.t1
Valid prediction for GeneMark_model.93903_t
Valid prediction for GlimmerHMM_glimmerT_53859-T1
Valid prediction for GlimmerHMM_glimmerT_53857-T1
Valid prediction for GeneMark_model.93874_t
Valid prediction for snap_scaffold_24-snap.1148-T1
Valid prediction for GlimmerHMM_glimmerT_53858-T1
Valid prediction for snap_scaffold_24-snap.1146-T1
Valid prediction for Augustus_model.g36034.t1
Valid prediction for snap_scaffold_24-snap.1132-T1
Couldn't classify 155140, 155410
Couldn't classify 156584, 156727
Sorry, prediction pasa_asmbl_32238.p1 fails validation.
(GTG)	 CA	155140-155410	GT	GTG
(CCC)	 AG	155608-156189	GT	AGG
(TCC)	 AG	156361-156497	GT	AGG
(ATT)	 AG	156584-156727	AG	CCA
-recovered pasa_asmbl_32238.p1, internal, 155608, 156189
-recovered pasa_asmbl_32238.p1, internal, 156361, 156497
Couldn't classify 174272, 174310
Couldn't classify 175770, 175901
Sorry, prediction pasa_asmbl_32241.p1 fails validation.
(TGG)	 CA	174272-174310	GT	CGG
(ATT)	 AG	174478-174728	GT	AAG
(GAG)	 AG	174918-175005	GT	AGG
(CTG)	 AG	175770-175901	AG	ACA
-recovered pasa_asmbl_32241.p1, internal, 174478, 174728
-recovered pasa_asmbl_32241.p1, internal, 174918, 175005
Valid prediction for snap_scaffold_24-snap.1147-T1
Valid prediction for GeneMark_model.93878_t

-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 GeneMark_model.93893_t
Valid prediction for GeneMark_model.93889_t
Valid prediction for GlimmerHMM_glimmerT_53835-T1
Valid prediction for snap_scaffold_24-snap.1152-T1
Valid prediction for GeneMark_model.93909_t
Valid prediction for GeneMark_model.93901_t
Valid prediction for GlimmerHMM_glimmerT_53847-T1
Valid prediction for GeneMark_model.93886_t
Valid prediction for GeneMark_model.93905_t
Valid prediction for GeneMark_model.93873_t
Valid prediction for Augustus_model.g36033.t1
Valid prediction for GeneMark_model.93885_t
Valid prediction for snap_scaffold_24-snap.1144-T1
Valid prediction for GeneMark_model.93883_t
Valid prediction for snap_scaffold_24-snap.1136-T1
Valid prediction for GlimmerHMM_glimmerT_53843-T1
Valid prediction for Augustus_model.g36041.t1
Valid prediction for GlimmerHMM_glimmerT_53854-T1
Valid prediction for GlimmerHMM_glimmerT_53846-T1
Valid prediction for GeneMark_model.93884_t
Valid prediction for GeneMark_model.93894_t
Valid prediction for GeneMark_model.93863_t
Valid prediction for snap_scaffold_24-snap.1129-T1
Valid prediction for GeneMark_model.93876_t
Valid prediction for snap_scaffold_24-snap.1114-T1
Valid prediction for snap_scaffold_24-snap.1127-T1
Valid prediction for snap_scaffold_24-snap.1138-T1
Valid prediction for GeneMark_model.93879_t
Valid prediction for GlimmerHMM_glimmerT_53850-T1
Valid prediction for GlimmerHMM_glimmerT_53838-T1
Valid prediction for Augustus_model.g36038.t1
Valid prediction for GeneMark_model.93907_t
Valid prediction for Augustus_model.g36040.t1
Valid prediction for snap_scaffold_24-snap.1126-T1
Valid prediction for GeneMark_model.93871_t
Valid prediction for GeneMark_model.93898_t
Valid prediction for GeneMark_model.93891_t
Valid prediction for GeneMark_model.93870_t
Valid prediction for GeneMark_model.93861_t
Valid prediction for snap_scaffold_24-snap.1131-T1
Valid prediction for GlimmerHMM_glimmerT_53839-T1
Valid prediction for snap_scaffold_24-snap.1141-T1
Valid prediction for snap_scaffold_24-snap.1123-T1
Valid prediction for snap_scaffold_24-snap.1149-T1
Valid prediction for GeneMark_model.93880_t
Valid prediction for GlimmerHMM_glimmerT_53853-T1
Valid prediction for GlimmerHMM_glimmerT_53851-T1
Valid prediction for GeneMark_model.93866_t
Valid prediction for snap_scaffold_24-snap.1117-T1
Valid prediction for snap_scaffold_24-snap.1125-T1
Valid prediction for GeneMark_model.93888_t
Valid prediction for GlimmerHMM_glimmerT_53841-T1
Valid prediction for snap_scaffold_24-snap.1113-T1
Valid prediction for Augustus_model.g36035.t1
Valid prediction for Augustus_model.g36032.t1
Valid prediction for GlimmerHMM_glimmerT_53844-T1
Valid prediction for GlimmerHMM_glimmerT_53856-T1
Valid prediction for snap_scaffold_24-snap.1116-T1
Valid prediction for GlimmerHMM_glimmerT_53836-T1
Valid prediction for GeneMark_model.93869_t
Valid prediction for snap_scaffold_24-snap.1122-T1
Valid prediction for snap_scaffold_24-snap.1115-T1
Valid prediction for GlimmerHMM_glimmerT_53832-T1
Valid prediction for GeneMark_model.93868_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7734, rend_intergenic: 4555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81657, rend_intergenic: 80520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89991, rend_intergenic: 84102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94339, rend_intergenic: 92434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121653, rend_intergenic: 116876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171922, rend_intergenic: 168260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 193697
-exon list size: 564


building trellis

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13.8    
14.0    
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18.9    
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20.1    
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20.7    
20.8    
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21.2    
21.4    
21.6    
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21.9    
22.1    
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22.4    
22.6    
22.8    
23.0    
23.1    
23.3    
23.5    
23.7    
23.9    
24.0    
24.2    
24.4    
24.6    
24.7    
24.9    
25.1    
25.3    
25.4    
25.6    
25.8    
26.0    
26.1    
26.3    
26.5    
26.7    
26.9    
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27.6    
27.7    
27.9    
28.1    
28.3    
28.4    
28.6    
28.8    
29.0    
29.2    
29.3    
29.5    
29.7    
29.9    
30.0    
30.2    
30.4    
30.6    
30.7    
30.9    
31.1    
31.3    
31.4    
31.6    
31.8    
32.0    
32.2    
32.3    
32.5    
32.7    
32.9    
33.0    
33.2    
33.4    
33.6    
33.7    
33.9    
34.1    
34.3    
34.5    
34.6    
34.8    
35.0    
35.2    
35.3    
35.5    
35.7    
35.9    
36.0    
36.2    
36.4    
36.6    
36.7    
36.9    
37.1    
37.3    
37.5    
37.6    
37.8    
38.0    
38.2    
38.3    
38.5    
38.7    
38.9    
39.0    
39.2    
39.4    
39.6    
39.8    
39.9    
40.1    
40.3    
40.5    
40.6    
40.8    
41.0    
41.2    
41.3    
41.5    
41.7    
41.9    
42.0    
42.2    
42.4    
42.6    
42.8    
42.9    
43.1    
43.3    
43.5    
43.6    
43.8    
44.0    
44.2    
44.3    
44.5    
44.7    
44.9    
45.1    
45.2    
45.4    
45.6    
45.8    
45.9    
46.1    
46.3    
46.5    
46.6    
46.8    
47.0    
47.2    
47.3    
47.5    
47.7    
47.9    
48.1    
48.2    
48.4    
48.6    
48.8    
48.9    
49.1    
49.3    
49.5    
49.6    
49.8    
50.0    
50.2    
50.4    
50.5    
50.7    
50.9    
51.1    
51.2    
51.4    
51.6    
51.8    
51.9    
52.1    
52.3    
52.5    
52.7    
52.8    
53.0    
53.2    
53.4    
53.5    
53.7    
53.9    
54.1    
54.2    
54.4    
54.6    
54.8    
54.9    
55.1    
55.3    
55.5    
55.7    
55.8    
56.0    
56.2    
56.4    
56.5    
56.7    
56.9    
57.1    
57.2    
57.4    
57.6    
57.8    
58.0    
58.1    
58.3    
58.5    
58.7    
58.8    
59.0    
59.2    
59.4    
59.5    
59.7    
59.9    
60.1    
60.2    
60.4    
60.6    
60.8    
61.0    
61.1    
61.3    
61.5    
61.7    
61.8    
62.0    
62.2    
62.4    
62.5    
62.7    
62.9    
63.1    
63.3    
63.4    
63.6    
63.8    
64.0    
64.1    
64.3    
64.5    
64.7    
64.8    
65.0    
65.2    
65.4    
65.5    
65.7    
65.9    
66.1    
66.3    
66.4    
66.6    
66.8    
67.0    
67.1    
67.3    
67.5    
67.7    
67.8    
68.0    
68.2    
68.4    
68.6    
68.7    
68.9    
69.1    
69.3    
69.4    
69.6    
69.8    
70.0    
70.1    
70.3    
70.5    
70.7    
70.8    
71.0    
71.2    
71.4    
71.6    
71.7    
71.9    
72.1    
72.3    
72.4    
72.6    
72.8    
73.0    
73.1    
73.3    
73.5    
73.7    
73.9    
74.0    
74.2    
74.4    
74.6    
74.7    
74.9    
75.1    
75.3    
75.4    
75.6    
75.8    
76.0    
76.1    
76.3    
76.5    
76.7    
76.9    
77.0    
77.2    
77.4    
77.6    
77.7    
77.9    
78.1    
78.3    
78.4    
78.6    
78.8    
79.0    
79.2    
79.3    
79.5    
79.7    
79.9    
80.0    
80.2    
80.4    
80.6    
80.7    
80.9    
81.1    
81.3    
81.4    
81.6    
81.8    
82.0    
82.2    
82.3    
82.5    
82.7    
82.9    
83.0    
83.2    
83.4    
83.6    
83.7    
83.9    
84.1    
84.3    
84.5    
84.6    
84.8    
85.0    
85.2    
85.3    
85.5    
85.7    
85.9    
86.0    
86.2    
86.4    
86.6    
86.7    
86.9    
87.1    
87.3    
87.5    
87.6    
87.8    
88.0    
88.2    
88.3    
88.5    
88.7    
88.9    
89.0    
89.2    
89.4    
89.6    
89.8    
89.9    
90.1    
90.3    
90.5    
90.6    
90.8    
91.0    
91.2    
91.3    
91.5    
91.7    
91.9    
92.0    
92.2    
92.4    
92.6    
92.8    
92.9    
93.1    
93.3    
93.5    
93.6    
93.8    
94.0    
94.2    
94.3    
94.5    
94.7    
94.9    
95.1    
95.2    
95.4    
95.6    
95.8    
95.9    
96.1    
96.3    
96.5    
96.6    
96.8    
97.0    
97.2    
97.3    
97.5    
97.7    
97.9    
98.1    
98.2    
98.4    
98.6    
98.8    
98.9    
99.1    
99.3    
99.5    
99.6    
99.8    
-found 38 predictions from path traversal
Error with prediction: snap lend_intergenic: 7734, rend_intergenic: 4555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 81657, rend_intergenic: 80520  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89991, rend_intergenic: 84102  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 94339, rend_intergenic: 92434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121653, rend_intergenic: 116876  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 171922, rend_intergenic: 168260  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 182967 - 193697
-exon list size: 37


building trellis

2.6    
5.1    
7.7    
10.3    
12.8    
15.4    
17.9    
20.5    
23.1    
25.6    
28.2    
30.8    
33.3    
35.9    
38.5    
41.0    
43.6    
46.2    
48.7    
51.3    
53.8    
56.4    
59.0    
61.5    
64.1    
66.7    
69.2    
71.8    
74.4    
76.9    
79.5    
82.1    
84.6    
87.2    
89.7    
92.3    
94.9    
97.4    
-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