-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_141

-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: +)Couldn't classify 421, 437
Sorry, prediction GeneMark_model.106714_t fails validation.
(GCC)	 AG	421-437	GT	GGG
(TGC)	 AG	542-634	GT	GGG
(GGA)	 AG	901-922	GT	GGG
(AAG)	 AG	974-984	GT	GGG
(AGA)	 AG	1009-1023	GT	GGG
(GGG)	 AG	1049-1057	GT	AGG
(GAG)	 AG	1084-1095	GT	GAG
(AGA)	 AG	1141-1149	GT	GGG
(AGA)	 AG	1203-1211	GT	GGG
(AGA)	 AG	1263-1271	GT	GGG
(ACA)	 AG	1295-1315	GT	GGG
(GTT)	 AG	1339-1344	GT	GGG
(GGG)	 AG	1368-1382	GT	AGG
(GGT)	 AG	1406-1441	GT	AAG
(GGT)	 AG	1489-1527	GT	GGG
(GGG)	 AG	1563-1571	GT	GGG
(AGA)	 AG	1601-1609	GT	GGG
(AGA)	 AG	1656-1664	GT	GGG
(AGA)	 AG	1696-1710	GT	GGG
(GGG)	 AG	1740-1748	GT	GGG
(GTT)	 AG	1941-1946	GT	GGG
(AGA)	 AG	1982-1996	GT	GGG
(AGA)	 AG	2031-2039	GT	GGG
(AGA)	 AG	2073-2084	GT	GGG
(AGA)	 AG	2118-2126	GT	GGG
(AGA)	 AG	2154-2168	GT	GGG
(GGG)	 AG	2204-2212	GT	GGG
(GGT)	 AG	2236-2277	GT	ACG
(AGA)	 AG	2309-2317	GT	GGG
(AGA)	 AG	2353-2361	GT	GGG
(GGG)	 AG	2400-2411	GT	GGG
(AGA)	 AG	2439-2471	GT	GGG
(AGA)	 AG	2513-2521	GT	GGG
(AGA)	 AG	2545-2565	GT	GGG
(GGT)	 AG	2595-2630	GT	AAG
(AGA)	 AG	2666-2680	GT	GGG
(ACA)	 AG	2706-2714	GT	GGG
(AGA)	 AG	2769-2777	GT	GGG
(AGA)	 AG	2816-2830	GT	GGG
(ACA)	 AG	2854-2868	GT	GGG
(GGG)	 AG	2904-2912	GT	GGG
(GGT)	 AG	2942-2971	GT	AAG
(AGG)	 AG	3021-3029	GT	GGG
(AGA)	 AG	3055-3063	GT	GGG
(ACA)	 AG	3085-3093	GT	GGG
(AGA)	 AG	3125-3139	GT	GGG
(AGA)	 AG	3326-3337	GT	GAG
(AGA)	 AG	3402-3446	GT	CAG
(AAG)	 AG	3470-3486	GT	TAG
(AAG)	 AG	3606-3681	GT	GAG
(GGA)	 AG	3716-3729	GT	ATG
(CGG)	 AG	3836-3852	GT	ATG
(GTG)	 AG	3943-3975	AC	AAA
-recovered GeneMark_model.106714_t, terminal, 1049, 1057
-recovered GeneMark_model.106714_t, terminal, 3943, 3975
-recovered GeneMark_model.106714_t, internal, 421, 437
-recovered GeneMark_model.106714_t, internal, 542, 634
-recovered GeneMark_model.106714_t, internal, 901, 922
-recovered GeneMark_model.106714_t, internal, 974, 984
-recovered GeneMark_model.106714_t, internal, 1009, 1023
-recovered GeneMark_model.106714_t, internal, 1049, 1057
-recovered GeneMark_model.106714_t, internal, 1084, 1095
-recovered GeneMark_model.106714_t, internal, 1141, 1149
-recovered GeneMark_model.106714_t, internal, 1203, 1211
-recovered GeneMark_model.106714_t, internal, 1263, 1271
-recovered GeneMark_model.106714_t, internal, 1295, 1315
-recovered GeneMark_model.106714_t, internal, 1339, 1344
-recovered GeneMark_model.106714_t, internal, 1368, 1382
-recovered GeneMark_model.106714_t, internal, 1406, 1441
-recovered GeneMark_model.106714_t, internal, 1489, 1527
-recovered GeneMark_model.106714_t, internal, 1563, 1571
-recovered GeneMark_model.106714_t, internal, 1601, 1609
-recovered GeneMark_model.106714_t, internal, 1656, 1664
-recovered GeneMark_model.106714_t, internal, 1696, 1710
-recovered GeneMark_model.106714_t, internal, 1740, 1748
-recovered GeneMark_model.106714_t, internal, 1941, 1946
-recovered GeneMark_model.106714_t, internal, 1982, 1996
-recovered GeneMark_model.106714_t, internal, 2031, 2039
-recovered GeneMark_model.106714_t, internal, 2073, 2084
-recovered GeneMark_model.106714_t, internal, 2118, 2126
-recovered GeneMark_model.106714_t, internal, 2154, 2168
-recovered GeneMark_model.106714_t, internal, 2204, 2212
-recovered GeneMark_model.106714_t, internal, 2236, 2277
-recovered GeneMark_model.106714_t, internal, 2309, 2317
-recovered GeneMark_model.106714_t, internal, 2353, 2361
-recovered GeneMark_model.106714_t, internal, 2400, 2411
-recovered GeneMark_model.106714_t, internal, 2439, 2471
-recovered GeneMark_model.106714_t, internal, 2513, 2521
-recovered GeneMark_model.106714_t, internal, 2545, 2565
-recovered GeneMark_model.106714_t, internal, 2595, 2630
-recovered GeneMark_model.106714_t, internal, 2666, 2680
-recovered GeneMark_model.106714_t, internal, 2706, 2714
-recovered GeneMark_model.106714_t, internal, 2769, 2777
-recovered GeneMark_model.106714_t, internal, 2816, 2830
-recovered GeneMark_model.106714_t, internal, 2854, 2868
-recovered GeneMark_model.106714_t, internal, 2904, 2912
-recovered GeneMark_model.106714_t, internal, 2942, 2971
-recovered GeneMark_model.106714_t, internal, 3021, 3029
-recovered GeneMark_model.106714_t, internal, 3055, 3063
-recovered GeneMark_model.106714_t, internal, 3085, 3093
-recovered GeneMark_model.106714_t, internal, 3125, 3139
-recovered GeneMark_model.106714_t, internal, 3326, 3337
-recovered GeneMark_model.106714_t, internal, 3402, 3446
-recovered GeneMark_model.106714_t, internal, 3470, 3486
-recovered GeneMark_model.106714_t, internal, 3606, 3681
-recovered GeneMark_model.106714_t, internal, 3716, 3729
-recovered GeneMark_model.106714_t, internal, 3836, 3852
Valid prediction for GlimmerHMM_glimmerT_61374-T1
Valid prediction for GeneMark_model.106715_t
Couldn't classify 421, 629
Sorry, prediction snap_scaffold_141-snap.2-T1 fails validation.
(GCC)	 AG	421-629	GT	AAG
(GGG)	 AG	3573-3729	GT	ATG
(GTG)	 AG	3943-3950	GG	AGG
-recovered snap_scaffold_141-snap.2-T1, terminal, 3943, 3950
-recovered snap_scaffold_141-snap.2-T1, internal, 421, 629
-recovered snap_scaffold_141-snap.2-T1, internal, 3573, 3729

-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_61373-T1
Valid prediction for snap_scaffold_141-snap.1-T1
Valid prediction for snap_scaffold_141-snap.3-T1
Valid prediction for GlimmerHMM_glimmerT_61372-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 3883, rend_intergenic: 421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 12926
-exon list size: 144


building trellis

0.7    
1.4    
2.1    
2.7    
3.4    
4.1    
4.8    
5.5    
6.2    
6.8    
7.5    
8.2    
8.9    
9.6    
10.3    
11.0    
11.6    
12.3    
13.0    
13.7    
14.4    
15.1    
15.8    
16.4    
17.1    
17.8    
18.5    
19.2    
19.9    
20.5    
21.2    
21.9    
22.6    
23.3    
24.0    
24.7    
25.3    
26.0    
26.7    
27.4    
28.1    
28.8    
29.5    
30.1    
30.8    
31.5    
32.2    
32.9    
33.6    
34.2    
34.9    
35.6    
36.3    
37.0    
37.7    
38.4    
39.0    
39.7    
40.4    
41.1    
41.8    
42.5    
43.2    
43.8    
44.5    
45.2    
45.9    
46.6    
47.3    
47.9    
48.6    
49.3    
50.0    
50.7    
51.4    
52.1    
52.7    
53.4    
54.1    
54.8    
55.5    
56.2    
56.8    
57.5    
58.2    
58.9    
59.6    
60.3    
61.0    
61.6    
62.3    
63.0    
63.7    
64.4    
65.1    
65.8    
66.4    
67.1    
67.8    
68.5    
69.2    
69.9    
70.5    
71.2    
71.9    
72.6    
73.3    
74.0    
74.7    
75.3    
76.0    
76.7    
77.4    
78.1    
78.8    
79.5    
80.1    
80.8    
81.5    
82.2    
82.9    
83.6    
84.2    
84.9    
85.6    
86.3    
87.0    
87.7    
88.4    
89.0    
89.7    
90.4    
91.1    
91.8    
92.5    
93.2    
93.8    
94.5    
95.2    
95.9    
96.6    
97.3    
97.9    
98.6    
99.3    
-found 2 predictions from path traversal
Error with prediction: snap lend_intergenic: 3883, rend_intergenic: 421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support