-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_19097723-19162884

-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_6-snap.4129-T1
Valid prediction for snap_scaffold_6-snap.4124-T1
Valid prediction for pasa_asmbl_47880.p1
Valid prediction for snap_scaffold_6-snap.4120-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_6-snap.4128-T1
Valid prediction for snap_scaffold_6-snap.4117-T1
Valid prediction for snap_scaffold_6-snap.4127-T1
Valid prediction for snap_scaffold_6-snap.4119-T1
Valid prediction for snap_scaffold_6-snap.4116-T1
Couldn't classify 47538, 47682
Sorry, prediction pasa_asmbl_47879.p1 fails validation.
(ATG)	 AG	43019-43101	GT	GAG
(ACG)	 AG	43749-43801	GT	AGG
(AGA)	 AG	43978-44044	GT	AGG
(AGA)	 AG	45220-45392	GT	AGG
(GTC)	 AG	45978-46093	GT	AGG
(GTT)	 AG	46173-46228	GT	AGG
(GGC)	 AG	47538-47682	TG	CCT
-recovered pasa_asmbl_47879.p1, initial, 43019, 43101
-recovered pasa_asmbl_47879.p1, internal, 43019, 43101
-recovered pasa_asmbl_47879.p1, internal, 43749, 43801
-recovered pasa_asmbl_47879.p1, internal, 43978, 44044
-recovered pasa_asmbl_47879.p1, internal, 45220, 45392
-recovered pasa_asmbl_47879.p1, internal, 45978, 46093
-recovered pasa_asmbl_47879.p1, internal, 46173, 46228
Valid prediction for snap_scaffold_6-snap.4122-T1
Couldn't classify 3883, 4254
Sorry, prediction pasa_asmbl_47874.p1 fails validation.
(ATC)	 AG	3883-4254	CG	CCC
Valid prediction for snap_scaffold_6-snap.4126-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 44083, 44100
Sorry, prediction pasa_asmbl_49300.p1 fails validation.
(CCT)	 CA	44083-44100	GT	AGG
(CAG)	 AG	45560-45673	GT	AGG
(GTG)	 AG	45989-46074	GT	AGG
(GAC)	 AG	46158-46271	GT	AGG
(GTA)	 AG	46619-46749	GT	CAG
(TGC)	 AG	47086-47204	GT	AAG
(GAG)	 AG	47639-47761	GT	AGG
(ACG)	 AG	47837-48022	GT	AGG
(GAT)	 AG	48514-48711	GT	AGG
(CTG)	 AG	48910-49068	GT	AGG
(GAG)	 AG	49923-50007	GT	AGG
(ACT)	 AG	50097-50221	GT	AGG
(GAC)	 AG	51087-51170	CT	AAC
-recovered pasa_asmbl_49300.p1, terminal, 51087, 51170
-recovered pasa_asmbl_49300.p1, internal, 45560, 45673
-recovered pasa_asmbl_49300.p1, internal, 45989, 46074
-recovered pasa_asmbl_49300.p1, internal, 46158, 46271
-recovered pasa_asmbl_49300.p1, internal, 46619, 46749
-recovered pasa_asmbl_49300.p1, internal, 47086, 47204
-recovered pasa_asmbl_49300.p1, internal, 47639, 47761
-recovered pasa_asmbl_49300.p1, internal, 47837, 48022
-recovered pasa_asmbl_49300.p1, internal, 48514, 48711
-recovered pasa_asmbl_49300.p1, internal, 48910, 49068
-recovered pasa_asmbl_49300.p1, internal, 49923, 50007
-recovered pasa_asmbl_49300.p1, internal, 50097, 50221
Valid prediction for snap_scaffold_6-snap.4130-T1
Valid prediction for snap_scaffold_6-snap.4123-T1
Valid prediction for GlimmerHMM_glimmerT_16669-T1
Couldn't classify 40434, 40489
Sorry, prediction pasa_asmbl_49306.p1 fails validation.
(ATG)	 AC	38352-38354	GT	TGG
(ACT)	 AG	38553-38580	GT	AAG
(GTT)	 AG	38657-38698	GT	GGG
(GAT)	 AG	38870-38918	GT	CGG
(CTC)	 AG	39086-39146	GT	CGG
(GAC)	 AG	39445-39495	GT	AGG
(GAC)	 AG	39834-39927	GT	TGG
(ATG)	 AG	40434-40489	GC	CAG
-recovered pasa_asmbl_49306.p1, initial, 38352, 38354
-recovered pasa_asmbl_49306.p1, initial, 40434, 40489
add_exon() Sorry, pasa_asmbl_49306.p1 38553-38580-terminal-3 is invalid.
-recovered pasa_asmbl_49306.p1, terminal, 38553, 38580
-recovered pasa_asmbl_49306.p1, internal, 38553, 38580
-recovered pasa_asmbl_49306.p1, internal, 38657, 38698
-recovered pasa_asmbl_49306.p1, internal, 38870, 38918
-recovered pasa_asmbl_49306.p1, internal, 39086, 39146
-recovered pasa_asmbl_49306.p1, internal, 39445, 39495
-recovered pasa_asmbl_49306.p1, internal, 39834, 39927
-recovered pasa_asmbl_49306.p1, internal, 40434, 40489
Valid prediction for snap_scaffold_6-snap.4125-T1
Couldn't classify 40562, 40664
Couldn't classify 42708, 43137
Sorry, prediction pasa_asmbl_49305.p1 fails validation.
(GCA)	 CA	40562-40664	GT	TGG
(ACT)	 AG	41331-41555	GT	TGG
(CTC)	 AG	41694-41838	GT	AGG
(CGA)	 AG	42213-42349	GT	AGG
(ACC)	 AG	42451-42544	GT	CGG
(ATT)	 AG	42708-43137	CC	GTC
-recovered pasa_asmbl_49305.p1, internal, 41331, 41555
-recovered pasa_asmbl_49305.p1, internal, 41694, 41838
-recovered pasa_asmbl_49305.p1, internal, 42213, 42349
-recovered pasa_asmbl_49305.p1, internal, 42451, 42544
Valid prediction for GlimmerHMM_glimmerT_16672-T1
Valid prediction for snap_scaffold_6-snap.4121-T1
Valid prediction for GlimmerHMM_glimmerT_16671-T1
Valid prediction for snap_scaffold_6-snap.4118-T1
Valid prediction for GlimmerHMM_glimmerT_16670-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 22964, rend_intergenic: 15054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26011, rend_intergenic: 23321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31225, rend_intergenic: 29800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 65162
-exon list size: 137


building trellis

0.7    
1.4    
2.2    
2.9    
3.6    
4.3    
5.0    
5.8    
6.5    
7.2    
7.9    
8.6    
9.4    
10.1    
10.8    
11.5    
12.2    
12.9    
13.7    
14.4    
15.1    
15.8    
16.5    
17.3    
18.0    
18.7    
19.4    
20.1    
20.9    
21.6    
22.3    
23.0    
23.7    
24.5    
25.2    
25.9    
26.6    
27.3    
28.1    
28.8    
29.5    
30.2    
30.9    
31.7    
32.4    
33.1    
33.8    
34.5    
35.3    
36.0    
36.7    
37.4    
38.1    
38.8    
39.6    
40.3    
41.0    
41.7    
42.4    
43.2    
43.9    
44.6    
45.3    
46.0    
46.8    
47.5    
48.2    
48.9    
49.6    
50.4    
51.1    
51.8    
52.5    
53.2    
54.0    
54.7    
55.4    
56.1    
56.8    
57.6    
58.3    
59.0    
59.7    
60.4    
61.2    
61.9    
62.6    
63.3    
64.0    
64.7    
65.5    
66.2    
66.9    
67.6    
68.3    
69.1    
69.8    
70.5    
71.2    
71.9    
72.7    
73.4    
74.1    
74.8    
75.5    
76.3    
77.0    
77.7    
78.4    
79.1    
79.9    
80.6    
81.3    
82.0    
82.7    
83.5    
84.2    
84.9    
85.6    
86.3    
87.1    
87.8    
88.5    
89.2    
89.9    
90.6    
91.4    
92.1    
92.8    
93.5    
94.2    
95.0    
95.7    
96.4    
97.1    
97.8    
98.6    
99.3    
-found 7 predictions from path traversal
Error with prediction: snap lend_intergenic: 22964, rend_intergenic: 15054  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26011, rend_intergenic: 23321  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 31225, rend_intergenic: 29800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 7 predictions persist after filtering for low support