-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_27/scaffold_27_3259550-3370618

-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 Augustus_model.g38890.t1
Valid prediction for snap_scaffold_27-snap.779-T1
Valid prediction for Augustus_model.g38895.t1
Valid prediction for snap_scaffold_27-snap.799-T1
Valid prediction for GeneMark_model.101513_t
Valid prediction for GeneMark_model.101498_t
Valid prediction for GeneMark_model.101518_t
Valid prediction for snap_scaffold_27-snap.804-T1
Valid prediction for Augustus_model.g38891.t1
Valid prediction for GlimmerHMM_glimmerT_58372-T1
Valid prediction for GeneMark_model.101508_t
Valid prediction for snap_scaffold_27-snap.793-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_58384-T1
Valid prediction for GlimmerHMM_glimmerT_58368-T1
Valid prediction for snap_scaffold_27-snap.787-T1
Valid prediction for GeneMark_model.101507_t
Valid prediction for Augustus_model.g38885.t1
Valid prediction for snap_scaffold_27-snap.803-T1
Valid prediction for GlimmerHMM_glimmerT_58376-T1
Valid prediction for GeneMark_model.101510_t
Valid prediction for GeneMark_model.101525_t
Valid prediction for GlimmerHMM_glimmerT_58373-T1
Valid prediction for Augustus_model.g38894.t1
Valid prediction for Augustus_model.g38896.t1
Valid prediction for GeneMark_model.101503_t
Valid prediction for snap_scaffold_27-snap.802-T1
Valid prediction for snap_scaffold_27-snap.788-T1
Valid prediction for GlimmerHMM_glimmerT_58385-T1
Valid prediction for GeneMark_model.101517_t
Valid prediction for GlimmerHMM_glimmerT_58375-T1
Valid prediction for snap_scaffold_27-snap.783-T1
Valid prediction for snap_scaffold_27-snap.786-T1
Valid prediction for snap_scaffold_27-snap.784-T1
Valid prediction for GeneMark_model.101500_t
Valid prediction for GeneMark_model.101527_t
Valid prediction for snap_scaffold_27-snap.794-T1
Valid prediction for GeneMark_model.101497_t
Valid prediction for GeneMark_model.101495_t
Valid prediction for GlimmerHMM_glimmerT_58383-T1
Valid prediction for GlimmerHMM_glimmerT_58378-T1
Valid prediction for GeneMark_model.101515_t
Valid prediction for snap_scaffold_27-snap.797-T1
Valid prediction for snap_scaffold_27-snap.798-T1
Valid prediction for GeneMark_model.101505_t
Valid prediction for snap_scaffold_27-snap.780-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: -)Couldn't classify 70079, 72466
Sorry, prediction pasa_asmbl_36859.p1 fails validation.
(GGG)	 TG	70079-72466	TT	AGT
Valid prediction for GlimmerHMM_glimmerT_58377-T1
Valid prediction for snap_scaffold_27-snap.776-T1
Valid prediction for GeneMark_model.101499_t
Valid prediction for GeneMark_model.101520_t
Valid prediction for GeneMark_model.101526_t
Valid prediction for GeneMark_model.101524_t
Valid prediction for snap_scaffold_27-snap.778-T1
Valid prediction for snap_scaffold_27-snap.801-T1
Valid prediction for Augustus_model.g38888.t1
Valid prediction for Augustus_model.g38887.t1
Valid prediction for GlimmerHMM_glimmerT_58374-T1
Valid prediction for GeneMark_model.101512_t
Valid prediction for GeneMark_model.101523_t
Valid prediction for snap_scaffold_27-snap.791-T1
Valid prediction for GeneMark_model.101514_t
Valid prediction for GlimmerHMM_glimmerT_58369-T1
Valid prediction for snap_scaffold_27-snap.795-T1
Valid prediction for snap_scaffold_27-snap.789-T1
Valid prediction for GlimmerHMM_glimmerT_58367-T1
Valid prediction for snap_scaffold_27-snap.790-T1
Valid prediction for snap_scaffold_27-snap.796-T1
Valid prediction for GeneMark_model.101511_t
Valid prediction for GeneMark_model.101516_t
Couldn't classify 100723, 100846
Sorry, prediction pasa_asmbl_36857.p1 fails validation.
(ATG)	 CC	82047-82088	GT	AGG
(CAC)	 AG	84421-84498	GT	AGG
(GTC)	 AG	85082-85226	GT	TAG
(ACG)	 AG	85890-86013	GT	AGG
(GGT)	 AG	86156-86318	GT	AGG
(TCT)	 AG	86994-87080	GT	AGG
(GAG)	 AG	88457-88594	GT	AGG
(CAG)	 AG	89456-89532	GT	AGG
(GGA)	 AG	89840-89913	GT	AGG
(GAA)	 AG	91254-91408	GT	AGG
(CAC)	 AG	92519-92646	GT	AGG
(GTA)	 AG	92742-92837	GT	AGG
(GTA)	 AG	93132-93296	GT	AGG
(CAC)	 AG	93641-93867	GT	CGG
(ATC)	 AG	94101-94171	GT	AGG
(GTT)	 AG	94438-94666	GT	AGG
(AGG)	 AG	95086-95349	GT	AGG
(ACC)	 AG	95797-95939	GT	CAG
(GCT)	 AG	96940-97119	GT	AGG
(GCC)	 AG	98945-99123	GT	AGG
(GTG)	 AG	99912-99990	GT	AGG
(ATA)	 AG	100224-100303	GT	AGG
(TTA)	 AG	100723-100846	GT	TGG
-recovered pasa_asmbl_36857.p1, initial, 82047, 82088
-recovered pasa_asmbl_36857.p1, internal, 84421, 84498
-recovered pasa_asmbl_36857.p1, internal, 85082, 85226
-recovered pasa_asmbl_36857.p1, internal, 85890, 86013
-recovered pasa_asmbl_36857.p1, internal, 86156, 86318
-recovered pasa_asmbl_36857.p1, internal, 86994, 87080
-recovered pasa_asmbl_36857.p1, internal, 88457, 88594
-recovered pasa_asmbl_36857.p1, internal, 89456, 89532
-recovered pasa_asmbl_36857.p1, internal, 89840, 89913
-recovered pasa_asmbl_36857.p1, internal, 91254, 91408
-recovered pasa_asmbl_36857.p1, internal, 92519, 92646
-recovered pasa_asmbl_36857.p1, internal, 92742, 92837
-recovered pasa_asmbl_36857.p1, internal, 93132, 93296
-recovered pasa_asmbl_36857.p1, internal, 93641, 93867
-recovered pasa_asmbl_36857.p1, internal, 94101, 94171
-recovered pasa_asmbl_36857.p1, internal, 94438, 94666
-recovered pasa_asmbl_36857.p1, internal, 95086, 95349
-recovered pasa_asmbl_36857.p1, internal, 95797, 95939
-recovered pasa_asmbl_36857.p1, internal, 96940, 97119
-recovered pasa_asmbl_36857.p1, internal, 98945, 99123
-recovered pasa_asmbl_36857.p1, internal, 99912, 99990
-recovered pasa_asmbl_36857.p1, internal, 100224, 100303
-recovered pasa_asmbl_36857.p1, internal, 100723, 100846
Valid prediction for GeneMark_model.101496_t
Valid prediction for Augustus_model.g38892.t1
Valid prediction for GeneMark_model.101519_t
Valid prediction for snap_scaffold_27-snap.785-T1
Valid prediction for snap_scaffold_27-snap.777-T1
Valid prediction for GlimmerHMM_glimmerT_58371-T1
Valid prediction for GlimmerHMM_glimmerT_58382-T1
Valid prediction for GlimmerHMM_glimmerT_58379-T1
Valid prediction for GeneMark_model.101494_t
Valid prediction for GeneMark_model.101504_t
Valid prediction for GeneMark_model.101502_t
Valid prediction for Augustus_model.g38886.t1
Valid prediction for GeneMark_model.101506_t
Valid prediction for Augustus_model.g38889.t1
Valid prediction for Augustus_model.g38893.t1
Valid prediction for GlimmerHMM_glimmerT_58380-T1
Valid prediction for snap_scaffold_27-snap.792-T1
Valid prediction for snap_scaffold_27-snap.782-T1
Valid prediction for snap_scaffold_27-snap.800-T1
Valid prediction for GeneMark_model.101501_t
Valid prediction for GeneMark_model.101493_t
Valid prediction for GlimmerHMM_glimmerT_58381-T1
Valid prediction for snap_scaffold_27-snap.781-T1
Valid prediction for GeneMark_model.101521_t
Valid prediction for GlimmerHMM_glimmerT_58370-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 27284, rend_intergenic: 18001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59441, rend_intergenic: 50471  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 111069
-exon list size: 474


building trellis

0.2    
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2.7    
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3.6    
3.8    
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6.9    
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7.6    
7.8    
8.0    
8.2    
8.4    
8.6    
8.8    
9.0    
9.2    
9.5    
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9.9    
10.1    
10.3    
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10.9    
11.1    
11.3    
11.6    
11.8    
12.0    
12.2    
12.4    
12.6    
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13.0    
13.2    
13.4    
13.7    
13.9    
14.1    
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16.0    
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16.6    
16.8    
17.0    
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17.6    
17.9    
18.1    
18.3    
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18.7    
18.9    
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19.7    
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22.1    
22.3    
22.5    
22.7    
22.9    
23.1    
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23.5    
23.7    
23.9    
24.2    
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24.6    
24.8    
25.0    
25.2    
25.4    
25.6    
25.8    
26.1    
26.3    
26.5    
26.7    
26.9    
27.1    
27.3    
27.5    
27.7    
27.9    
28.2    
28.4    
28.6    
28.8    
29.0    
29.2    
29.4    
29.6    
29.8    
30.0    
30.3    
30.5    
30.7    
30.9    
31.1    
31.3    
31.5    
31.7    
31.9    
32.1    
32.4    
32.6    
32.8    
33.0    
33.2    
33.4    
33.6    
33.8    
34.0    
34.2    
34.5    
34.7    
34.9    
35.1    
35.3    
35.5    
35.7    
35.9    
36.1    
36.3    
36.6    
36.8    
37.0    
37.2    
37.4    
37.6    
37.8    
38.0    
38.2    
38.4    
38.7    
38.9    
39.1    
39.3    
39.5    
39.7    
39.9    
40.1    
40.3    
40.5    
40.8    
41.0    
41.2    
41.4    
41.6    
41.8    
42.0    
42.2    
42.4    
42.6    
42.9    
43.1    
43.3    
43.5    
43.7    
43.9    
44.1    
44.3    
44.5    
44.7    
45.0    
45.2    
45.4    
45.6    
45.8    
46.0    
46.2    
46.4    
46.6    
46.8    
47.1    
47.3    
47.5    
47.7    
47.9    
48.1    
48.3    
48.5    
48.7    
48.9    
49.2    
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49.6    
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50.6    
50.8    
51.1    
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51.7    
51.9    
52.1    
52.3    
52.5    
52.7    
52.9    
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53.6    
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54.6    
54.8    
55.0    
55.3    
55.5    
55.7    
55.9    
56.1    
56.3    
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56.7    
56.9    
57.1    
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57.6    
57.8    
58.0    
58.2    
58.4    
58.6    
58.8    
59.0    
59.2    
59.5    
59.7    
59.9    
60.1    
60.3    
60.5    
60.7    
60.9    
61.1    
61.3    
61.6    
61.8    
62.0    
62.2    
62.4    
62.6    
62.8    
63.0    
63.2    
63.4    
63.7    
63.9    
64.1    
64.3    
64.5    
64.7    
64.9    
65.1    
65.3    
65.5    
65.8    
66.0    
66.2    
66.4    
66.6    
66.8    
67.0    
67.2    
67.4    
67.6    
67.9    
68.1    
68.3    
68.5    
68.7    
68.9    
69.1    
69.3    
69.5    
69.7    
70.0    
70.2    
70.4    
70.6    
70.8    
71.0    
71.2    
71.4    
71.6    
71.8    
72.1    
72.3    
72.5    
72.7    
72.9    
73.1    
73.3    
73.5    
73.7    
73.9    
74.2    
74.4    
74.6    
74.8    
75.0    
75.2    
75.4    
75.6    
75.8    
76.1    
76.3    
76.5    
76.7    
76.9    
77.1    
77.3    
77.5    
77.7    
77.9    
78.2    
78.4    
78.6    
78.8    
79.0    
79.2    
79.4    
79.6    
79.8    
80.0    
80.3    
80.5    
80.7    
80.9    
81.1    
81.3    
81.5    
81.7    
81.9    
82.1    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.6    
83.8    
84.0    
84.2    
84.5    
84.7    
84.9    
85.1    
85.3    
85.5    
85.7    
85.9    
86.1    
86.3    
86.6    
86.8    
87.0    
87.2    
87.4    
87.6    
87.8    
88.0    
88.2    
88.4    
88.7    
88.9    
89.1    
89.3    
89.5    
89.7    
89.9    
90.1    
90.3    
90.5    
90.8    
91.0    
91.2    
91.4    
91.6    
91.8    
92.0    
92.2    
92.4    
92.6    
92.9    
93.1    
93.3    
93.5    
93.7    
93.9    
94.1    
94.3    
94.5    
94.7    
95.0    
95.2    
95.4    
95.6    
95.8    
96.0    
96.2    
96.4    
96.6    
96.8    
97.1    
97.3    
97.5    
97.7    
97.9    
98.1    
98.3    
98.5    
98.7    
98.9    
99.2    
99.4    
99.6    
99.8    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 27284, rend_intergenic: 18001  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 59441, rend_intergenic: 50471  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support