-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_14/scaffold_14_224272-397700

-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.g22754.t1
Valid prediction for GeneMark_model.58106_t
Valid prediction for GlimmerHMM_glimmerT_33883-T1
Valid prediction for GeneMark_model.58107_t
Valid prediction for Augustus_model.g22760.t1
Valid prediction for GlimmerHMM_glimmerT_33882-T1
Valid prediction for snap_scaffold_14-snap.47-T1
Valid prediction for snap_scaffold_14-snap.48-T1
Valid prediction for Augustus_model.g22744.t1
Valid prediction for GlimmerHMM_glimmerT_33871-T1
Valid prediction for GeneMark_model.58119_t
Valid prediction for snap_scaffold_14-snap.40-T1
Valid prediction for Augustus_model.g22741.t1
Valid prediction for GlimmerHMM_glimmerT_33865-T1
Valid prediction for GeneMark_model.58115_t
Valid prediction for GlimmerHMM_glimmerT_33887-T1
Valid prediction for Augustus_model.g22736.t1
Valid prediction for Augustus_model.g22752.t1
Valid prediction for GeneMark_model.58101_t
Valid prediction for GlimmerHMM_glimmerT_33878-T1
Valid prediction for snap_scaffold_14-snap.41-T1
Valid prediction for Augustus_model.g22746.t1
Valid prediction for snap_scaffold_14-snap.46-T1
Valid prediction for GeneMark_model.58116_t
Valid prediction for Augustus_model.g22767.t1
Valid prediction for snap_scaffold_14-snap.61-T1
Valid prediction for snap_scaffold_14-snap.66-T1
Valid prediction for GlimmerHMM_glimmerT_33868-T1
Valid prediction for Augustus_model.g22737.t1
Valid prediction for GlimmerHMM_glimmerT_33862-T1
Valid prediction for GlimmerHMM_glimmerT_33885-T1
Valid prediction for GlimmerHMM_glimmerT_33863-T1
Valid prediction for snap_scaffold_14-snap.51-T1
Valid prediction for snap_scaffold_14-snap.63-T1
Valid prediction for GeneMark_model.58121_t
Valid prediction for Augustus_model.g22757.t1
Valid prediction for GlimmerHMM_glimmerT_33877-T1
Valid prediction for GlimmerHMM_glimmerT_33861-T1
Valid prediction for Augustus_model.g22738.t1
Valid prediction for GlimmerHMM_glimmerT_33869-T1
Valid prediction for Augustus_model.g22739.t1
Valid prediction for CodingQuarry_transcript_15478-T1
Valid prediction for snap_scaffold_14-snap.59-T1
Valid prediction for HiQ_model.g22758.t1
Valid prediction for GeneMark_model.58114_t
Valid prediction for GlimmerHMM_glimmerT_33879-T1
Valid prediction for snap_scaffold_14-snap.60-T1
Valid prediction for GeneMark_model.58103_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 Augustus_model.g22747.t1
Valid prediction for snap_scaffold_14-snap.55-T1
Valid prediction for GeneMark_model.58111_t
Valid prediction for Augustus_model.g22745.t1
Valid prediction for snap_scaffold_14-snap.73-T1
Valid prediction for Augustus_model.g22762.t1
Couldn't classify 98914, 99060
Couldn't classify 99162, 99338
Sorry, prediction pasa_asmbl_13785.p1 fails validation.
(GGT)	 CA	98914-99060	GT	AGG
(GTG)	 AG	99162-99338	TG	AGT
Valid prediction for GlimmerHMM_glimmerT_33875-T1
Valid prediction for Augustus_model.g22769.t1
Valid prediction for Augustus_model.g22742.t1
Valid prediction for HiQ_model.g22756.t1
Valid prediction for CodingQuarry_transcript_15477-T1
Valid prediction for Augustus_model.g22761.t1
Couldn't classify 111626, 111757
Couldn't classify 114832, 114986
Sorry, prediction pasa_asmbl_12797.p1 fails validation.
(CAG)	 GG	111626-111757	GT	AGG
(AGT)	 AG	111937-112237	GT	GGG
(TGG)	 AG	112472-112626	GT	AGG
(GTG)	 AG	112943-113045	GT	AGG
(CTG)	 AG	114093-114300	GT	GGG
(GTG)	 AG	114414-114547	GT	AGG
(ATC)	 AG	114832-114986	GG	CTG
-recovered pasa_asmbl_12797.p1, terminal, 112943, 113045
-recovered pasa_asmbl_12797.p1, internal, 111937, 112237
-recovered pasa_asmbl_12797.p1, internal, 112472, 112626
-recovered pasa_asmbl_12797.p1, internal, 112943, 113045
-recovered pasa_asmbl_12797.p1, internal, 114093, 114300
-recovered pasa_asmbl_12797.p1, internal, 114414, 114547
Valid prediction for snap_scaffold_14-snap.62-T1
Valid prediction for snap_scaffold_14-snap.69-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GeneMark_model.58118_t
Valid prediction for snap_scaffold_14-snap.56-T1
Valid prediction for snap_scaffold_14-snap.70-T1
Valid prediction for snap_scaffold_14-snap.49-T1
Valid prediction for snap_scaffold_14-snap.39-T1
Valid prediction for snap_scaffold_14-snap.68-T1
Valid prediction for snap_scaffold_14-snap.42-T1
Valid prediction for Augustus_model.g22750.t1
Valid prediction for GlimmerHMM_glimmerT_33889-T1
Valid prediction for snap_scaffold_14-snap.72-T1
Valid prediction for snap_scaffold_14-snap.54-T1
Valid prediction for snap_scaffold_14-snap.38-T1
Valid prediction for snap_scaffold_14-snap.45-T1
Sorry, intron length (9) is less than minimum required (10)
Couldn't classify 77043, 77130
Couldn't classify 80509, 80658
Sorry, prediction pasa_asmbl_12799.p1 fails validation.
(GAG)	 AT	77043-77130	GT	AGG
(GCC)	 AG	77410-77493	GT	AGG
(AAA)	 AG	77623-77709	GT	AGG
(GTG)	 AG	78653-78836	GT	AAG
(GTT)	 AG	79224-79396	GT	AAG
(TGG)	 AG	79843-79998	GT	AGG
(GTC)	 AG	80205-80341	GT	AGG
(GCA)	 AG	80509-80658	AC	GTA
-recovered pasa_asmbl_12799.p1, internal, 77410, 77493
-recovered pasa_asmbl_12799.p1, internal, 77623, 77709
-recovered pasa_asmbl_12799.p1, internal, 78653, 78836
-recovered pasa_asmbl_12799.p1, internal, 79224, 79396
-recovered pasa_asmbl_12799.p1, internal, 79843, 79998
-recovered pasa_asmbl_12799.p1, internal, 80205, 80341
Valid prediction for GlimmerHMM_glimmerT_33890-T1
Valid prediction for GlimmerHMM_glimmerT_33880-T1
Valid prediction for snap_scaffold_14-snap.67-T1
Valid prediction for GlimmerHMM_glimmerT_33888-T1
Valid prediction for Augustus_model.g22755.t1
Valid prediction for Augustus_model.g22766.t1
Valid prediction for snap_scaffold_14-snap.50-T1
Couldn't classify 159262, 159690
Sorry, prediction pasa_asmbl_12792.p1 fails validation.
(ATT)	 CA	159262-159690	TC	ACT
Valid prediction for GlimmerHMM_glimmerT_33873-T1
Valid prediction for GeneMark_model.58122_t
Valid prediction for GlimmerHMM_glimmerT_33884-T1
Valid prediction for GlimmerHMM_glimmerT_33872-T1
Valid prediction for GlimmerHMM_glimmerT_33874-T1
Valid prediction for snap_scaffold_14-snap.74-T1
Valid prediction for GlimmerHMM_glimmerT_33864-T1
Valid prediction for Augustus_model.g22759.t1
Valid prediction for snap_scaffold_14-snap.76-T1
Valid prediction for GeneMark_model.58117_t
Couldn't classify 26384, 26563
Couldn't classify 27166, 27300
Sorry, prediction pasa_asmbl_13855.p1 fails validation.
(GTG)	 CA	26384-26563	GT	AGG
(GTG)	 AG	27166-27300	GG	ACG
Couldn't classify 118880, 119024
Couldn't classify 121269, 121424
Sorry, prediction pasa_asmbl_12796.p1 fails validation.
(GCC)	 TA	118880-119024	GT	AGG
(AAA)	 AG	120771-120877	GT	AGG
(GGG)	 AG	121269-121424	GT	AGG
-recovered pasa_asmbl_12796.p1, internal, 120771, 120877
-recovered pasa_asmbl_12796.p1, internal, 121269, 121424
Valid prediction for GeneMark_model.58104_t
Valid prediction for GeneMark_model.58112_t
Valid prediction for snap_scaffold_14-snap.71-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g22751.t1
Valid prediction for snap_scaffold_14-snap.44-T1
Couldn't classify 1874, 2632
Sorry, prediction pasa_asmbl_11719.p1 fails validation.
(CGC)	 TG	1874-2632	TA	CCT
Valid prediction for snap_scaffold_14-snap.43-T1
Valid prediction for GlimmerHMM_glimmerT_33876-T1
Valid prediction for GeneMark_model.58125_t
Valid prediction for snap_scaffold_14-snap.53-T1
Valid prediction for GeneMark_model.58113_t
Valid prediction for snap_scaffold_14-snap.57-T1
Valid prediction for GeneMark_model.58123_t
Valid prediction for GeneMark_model.58105_t
Valid prediction for Augustus_model.g22768.t1
Valid prediction for Augustus_model.g22763.t1
Couldn't classify 17977, 18012
Couldn't classify 20447, 20562
Sorry, prediction pasa_asmbl_12809.p1 fails validation.
(AAC)	 TC	17977-18012	GT	AGG
(GCT)	 AG	18383-18529	GT	AGG
(CCA)	 AG	18730-18877	GT	AGG
(GGA)	 AG	20447-20562	GG	TTG
-recovered pasa_asmbl_12809.p1, internal, 18383, 18529
-recovered pasa_asmbl_12809.p1, internal, 18730, 18877
Valid prediction for Augustus_model.g22740.t1
Valid prediction for Augustus_model.g22749.t1
Valid prediction for GeneMark_model.58108_t
Valid prediction for GlimmerHMM_glimmerT_33866-T1
Valid prediction for snap_scaffold_14-snap.52-T1
Valid prediction for pasa_asmbl_12791.p1
Valid prediction for HiQ_model.g22748.t1
Valid prediction for snap_scaffold_14-snap.75-T1
Valid prediction for Augustus_model.g22764.t1
Valid prediction for GeneMark_model.58102_t
Valid prediction for GlimmerHMM_glimmerT_33886-T1
Valid prediction for snap_scaffold_14-snap.65-T1
Valid prediction for snap_scaffold_14-snap.58-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_33867-T1
Valid prediction for snap_scaffold_14-snap.64-T1
Valid prediction for Augustus_model.g22765.t1
Valid prediction for GeneMark_model.58110_t
Valid prediction for GeneMark_model.58109_t
Valid prediction for Augustus_model.g22743.t1
Valid prediction for Augustus_model.g22753.t1
Valid prediction for GlimmerHMM_glimmerT_33881-T1
Valid prediction for GeneMark_model.58124_t
Couldn't classify 15371, 15597
Couldn't classify 16257, 16386
Couldn't classify 17246, 17409
Sorry, prediction pasa_asmbl_12810.p1 fails validation.
(TCA)	 TC	15371-15597	AT	CAA
(TTG)	 AC	16257-16386	GT	AGG
(AAG)	 AG	16857-17082	GT	GGG
(CTC)	 AG	17246-17409	CA	ACC
-recovered pasa_asmbl_12810.p1, internal, 16857, 17082
Valid prediction for CodingQuarry_transcript_15479-T1
Valid prediction for pasa_asmbl_12801.p1
Valid prediction for GlimmerHMM_glimmerT_33870-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 98765, rend_intergenic: 97301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 173429
-exon list size: 410


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.5    
1.7    
1.9    
2.2    
2.4    
2.7    
2.9    
3.2    
3.4    
3.6    
3.9    
4.1    
4.4    
4.6    
4.9    
5.1    
5.3    
5.6    
5.8    
6.1    
6.3    
6.6    
6.8    
7.0    
7.3    
7.5    
7.8    
8.0    
8.3    
8.5    
8.7    
9.0    
9.2    
9.5    
9.7    
10.0    
10.2    
10.4    
10.7    
10.9    
11.2    
11.4    
11.7    
11.9    
12.1    
12.4    
12.6    
12.9    
13.1    
13.3    
13.6    
13.8    
14.1    
14.3    
14.6    
14.8    
15.0    
15.3    
15.5    
15.8    
16.0    
16.3    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
18.0    
18.2    
18.4    
18.7    
18.9    
19.2    
19.4    
19.7    
19.9    
20.1    
20.4    
20.6    
20.9    
21.1    
21.4    
21.6    
21.8    
22.1    
22.3    
22.6    
22.8    
23.1    
23.3    
23.5    
23.8    
24.0    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
26.0    
26.2    
26.5    
26.7    
26.9    
27.2    
27.4    
27.7    
27.9    
28.2    
28.4    
28.6    
28.9    
29.1    
29.4    
29.6    
29.9    
30.1    
30.3    
30.6    
30.8    
31.1    
31.3    
31.6    
31.8    
32.0    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.5    
34.7    
35.0    
35.2    
35.4    
35.7    
35.9    
36.2    
36.4    
36.7    
36.9    
37.1    
37.4    
37.6    
37.9    
38.1    
38.3    
38.6    
38.8    
39.1    
39.3    
39.6    
39.8    
40.0    
40.3    
40.5    
40.8    
41.0    
41.3    
41.5    
41.7    
42.0    
42.2    
42.5    
42.7    
43.0    
43.2    
43.4    
43.7    
43.9    
44.2    
44.4    
44.7    
44.9    
45.1    
45.4    
45.6    
45.9    
46.1    
46.4    
46.6    
46.8    
47.1    
47.3    
47.6    
47.8    
48.1    
48.3    
48.5    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.5    
51.7    
51.9    
52.2    
52.4    
52.7    
52.9    
53.2    
53.4    
53.6    
53.9    
54.1    
54.4    
54.6    
54.9    
55.1    
55.3    
55.6    
55.8    
56.1    
56.3    
56.6    
56.8    
57.0    
57.3    
57.5    
57.8    
58.0    
58.3    
58.5    
58.7    
59.0    
59.2    
59.5    
59.7    
60.0    
60.2    
60.4    
60.7    
60.9    
61.2    
61.4    
61.7    
61.9    
62.1    
62.4    
62.6    
62.9    
63.1    
63.3    
63.6    
63.8    
64.1    
64.3    
64.6    
64.8    
65.0    
65.3    
65.5    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.5    
67.7    
68.0    
68.2    
68.4    
68.7    
68.9    
69.2    
69.4    
69.7    
69.9    
70.1    
70.4    
70.6    
70.9    
71.1    
71.4    
71.6    
71.8    
72.1    
72.3    
72.6    
72.8    
73.1    
73.3    
73.5    
73.8    
74.0    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
76.0    
76.2    
76.5    
76.7    
76.9    
77.2    
77.4    
77.7    
77.9    
78.2    
78.4    
78.6    
78.9    
79.1    
79.4    
79.6    
79.9    
80.1    
80.3    
80.6    
80.8    
81.1    
81.3    
81.6    
81.8    
82.0    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.7    
84.0    
84.2    
84.5    
84.7    
85.0    
85.2    
85.4    
85.7    
85.9    
86.2    
86.4    
86.7    
86.9    
87.1    
87.4    
87.6    
87.9    
88.1    
88.3    
88.6    
88.8    
89.1    
89.3    
89.6    
89.8    
90.0    
90.3    
90.5    
90.8    
91.0    
91.3    
91.5    
91.7    
92.0    
92.2    
92.5    
92.7    
93.0    
93.2    
93.4    
93.7    
93.9    
94.2    
94.4    
94.7    
94.9    
95.1    
95.4    
95.6    
95.9    
96.1    
96.4    
96.6    
96.8    
97.1    
97.3    
97.6    
97.8    
98.1    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 41 predictions from path traversal
Error with prediction: snap lend_intergenic: 98765, rend_intergenic: 97301  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 40 predictions persist after filtering for low support