-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_9877506-10068312

-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_26-snap.2202-T1
Valid prediction for GlimmerHMM_glimmerT_56439-T1
Valid prediction for GlimmerHMM_glimmerT_56434-T1
Valid prediction for snap_scaffold_26-snap.2220-T1
Valid prediction for snap_scaffold_26-snap.2218-T1
Valid prediction for snap_scaffold_26-snap.2212-T1
Valid prediction for Augustus_model.g37403.t1
Valid prediction for Augustus_model.g37402.t1
Couldn't classify 23209, 24093
Sorry, prediction pasa_asmbl_35319.p1 fails validation.
(ACC)	 CA	23209-24093	GT	AAG
Valid prediction for GlimmerHMM_glimmerT_56423-T1
Valid prediction for GlimmerHMM_glimmerT_56430-T1
Valid prediction for GlimmerHMM_glimmerT_56441-T1
Valid prediction for snap_scaffold_26-snap.2197-T1
Valid prediction for GlimmerHMM_glimmerT_56436-T1
Valid prediction for snap_scaffold_26-snap.2221-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g37393.t1
Couldn't classify 146130, 147989
Sorry, prediction pasa_asmbl_35293.p1 fails validation.
(AGC)	 AG	146130-147989	CA	CCC
Valid prediction for Augustus_model.g37398.t1
Valid prediction for Augustus_model.g37395.t1
Valid prediction for GlimmerHMM_glimmerT_56433-T1
Valid prediction for snap_scaffold_26-snap.2198-T1
Valid prediction for snap_scaffold_26-snap.2211-T1
Valid prediction for GlimmerHMM_glimmerT_56438-T1
Valid prediction for Augustus_model.g37405.t1
Couldn't classify 149153, 150016
Sorry, prediction pasa_asmbl_35294.p1 fails validation.
(TTC)	 AC	149153-150016	TA	GAT
Valid prediction for snap_scaffold_26-snap.2222-T1
Valid prediction for GlimmerHMM_glimmerT_56422-T1
Valid prediction for snap_scaffold_26-snap.2226-T1
Valid prediction for Augustus_model.g37394.t1
Valid prediction for snap_scaffold_26-snap.2195-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: -)Valid prediction for Augustus_model.g37400.t1
Valid prediction for snap_scaffold_26-snap.2209-T1
Valid prediction for GlimmerHMM_glimmerT_56427-T1
Valid prediction for HiQ_model.g37396.t1
Valid prediction for snap_scaffold_26-snap.2216-T1
Valid prediction for snap_scaffold_26-snap.2201-T1
Valid prediction for snap_scaffold_26-snap.2207-T1
Valid prediction for snap_scaffold_26-snap.2225-T1
Valid prediction for GlimmerHMM_glimmerT_56425-T1
Valid prediction for CodingQuarry_transcript_40454-T1
Valid prediction for GlimmerHMM_glimmerT_56432-T1
Valid prediction for snap_scaffold_26-snap.2200-T1
Valid prediction for GlimmerHMM_glimmerT_56424-T1
Couldn't classify 145896, 145946
Sorry, prediction pasa_asmbl_35801.p1 fails validation.
(AGG)	 GT	145896-145946	GT	AGG
(TAC)	 AG	146073-146222	GT	AGG
(AAC)	 AG	148936-149109	GT	AGG
(GTT)	 AG	149238-149321	GT	AGG
(GAT)	 AG	149607-149693	GT	TGG
(ATG)	 AG	149877-149981	TC	GAT
-recovered pasa_asmbl_35801.p1, terminal, 149877, 149981
-recovered pasa_asmbl_35801.p1, internal, 146073, 146222
-recovered pasa_asmbl_35801.p1, internal, 148936, 149109
-recovered pasa_asmbl_35801.p1, internal, 149238, 149321
-recovered pasa_asmbl_35801.p1, internal, 149607, 149693
Valid prediction for snap_scaffold_26-snap.2219-T1
Valid prediction for snap_scaffold_26-snap.2214-T1
Valid prediction for GlimmerHMM_glimmerT_56428-T1
Valid prediction for snap_scaffold_26-snap.2223-T1
Valid prediction for snap_scaffold_26-snap.2208-T1
Valid prediction for snap_scaffold_26-snap.2205-T1
Valid prediction for Augustus_model.g37399.t1
Couldn't classify 120669, 120822
Sorry, prediction pasa_asmbl_35803.p1 fails validation.
(TCA)	 TG	120669-120822	GT	AGG
(GAA)	 AG	121168-121311	GT	AGG
(CTC)	 AG	121515-121634	GT	TGG
(TGG)	 AG	122111-122254	GT	TGG
(ATG)	 AG	122373-122503	GT	GGG
(GAG)	 AG	122941-123073	GT	CAG
(TTG)	 AG	123228-123379	GT	TAG
(GTT)	 AG	123501-123597	GT	TGG
(GTC)	 AG	123794-123955	GT	TGG
(GCG)	 AG	124111-124274	GT	AGG
(GGT)	 AG	124423-124533	AC	GAA
add_exon() Sorry, pasa_asmbl_35803.p1 122373-122503-initial-1 is invalid.
-recovered pasa_asmbl_35803.p1, initial, 122373, 122503
-recovered pasa_asmbl_35803.p1, terminal, 124423, 124533
-recovered pasa_asmbl_35803.p1, internal, 121168, 121311
-recovered pasa_asmbl_35803.p1, internal, 121515, 121634
-recovered pasa_asmbl_35803.p1, internal, 122111, 122254
-recovered pasa_asmbl_35803.p1, internal, 122373, 122503
-recovered pasa_asmbl_35803.p1, internal, 122941, 123073
-recovered pasa_asmbl_35803.p1, internal, 123228, 123379
-recovered pasa_asmbl_35803.p1, internal, 123501, 123597
-recovered pasa_asmbl_35803.p1, internal, 123794, 123955
-recovered pasa_asmbl_35803.p1, internal, 124111, 124274
Valid prediction for GlimmerHMM_glimmerT_56444-T1
Valid prediction for CodingQuarry_transcript_40453-T1
Valid prediction for GlimmerHMM_glimmerT_56435-T1
Valid prediction for snap_scaffold_26-snap.2206-T1
Valid prediction for snap_scaffold_26-snap.2215-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_56442-T1
Valid prediction for snap_scaffold_26-snap.2224-T1
Valid prediction for GlimmerHMM_glimmerT_56445-T1
Valid prediction for snap_scaffold_26-snap.2199-T1
Valid prediction for GlimmerHMM_glimmerT_56426-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.2203-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for Augustus_model.g37404.t1
Valid prediction for GlimmerHMM_glimmerT_56440-T1
Valid prediction for GlimmerHMM_glimmerT_56437-T1
Valid prediction for GlimmerHMM_glimmerT_56429-T1
Valid prediction for GlimmerHMM_glimmerT_56431-T1
Valid prediction for snap_scaffold_26-snap.2204-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.2196-T1
Couldn't classify 106963, 107215
Couldn't classify 113175, 113404
Sorry, prediction pasa_asmbl_35806.p1 fails validation.
(CGT)	 AT	106963-107215	GT	GGG
(TCT)	 AG	107714-107977	GT	ACG
(ATC)	 AG	108268-108383	GT	CCG
(AAA)	 AG	108902-109055	GT	AAG
(TGA)	 AG	110865-111134	GT	AGG
(ACC)	 AG	111527-111712	GT	AGG
(GTC)	 AG	112891-112980	GT	GGG
(CGC)	 AG	113175-113404	CA	GAC
-recovered pasa_asmbl_35806.p1, internal, 107714, 107977
-recovered pasa_asmbl_35806.p1, internal, 108268, 108383
-recovered pasa_asmbl_35806.p1, internal, 108902, 109055
-recovered pasa_asmbl_35806.p1, internal, 110865, 111134
-recovered pasa_asmbl_35806.p1, internal, 111527, 111712
-recovered pasa_asmbl_35806.p1, internal, 112891, 112980
Valid prediction for snap_scaffold_26-snap.2213-T1
Valid prediction for GlimmerHMM_glimmerT_56443-T1
Valid prediction for snap_scaffold_26-snap.2217-T1
Valid prediction for snap_scaffold_26-snap.2210-T1
Valid prediction for Augustus_model.g37401.t1
Valid prediction for Augustus_model.g37397.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 19800, rend_intergenic: 17867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 190807
-exon list size: 217


building trellis

0.5    
0.9    
1.4    
1.8    
2.3    
2.7    
3.2    
3.7    
4.1    
4.6    
5.0    
5.5    
5.9    
6.4    
6.8    
7.3    
7.8    
8.2    
8.7    
9.1    
9.6    
10.0    
10.5    
11.0    
11.4    
11.9    
12.3    
12.8    
13.2    
13.7    
14.2    
14.6    
15.1    
15.5    
16.0    
16.4    
16.9    
17.4    
17.8    
18.3    
18.7    
19.2    
19.6    
20.1    
20.5    
21.0    
21.5    
21.9    
22.4    
22.8    
23.3    
23.7    
24.2    
24.7    
25.1    
25.6    
26.0    
26.5    
26.9    
27.4    
27.9    
28.3    
28.8    
29.2    
29.7    
30.1    
30.6    
31.1    
31.5    
32.0    
32.4    
32.9    
33.3    
33.8    
34.2    
34.7    
35.2    
35.6    
36.1    
36.5    
37.0    
37.4    
37.9    
38.4    
38.8    
39.3    
39.7    
40.2    
40.6    
41.1    
41.6    
42.0    
42.5    
42.9    
43.4    
43.8    
44.3    
44.7    
45.2    
45.7    
46.1    
46.6    
47.0    
47.5    
47.9    
48.4    
48.9    
49.3    
49.8    
50.2    
50.7    
51.1    
51.6    
52.1    
52.5    
53.0    
53.4    
53.9    
54.3    
54.8    
55.3    
55.7    
56.2    
56.6    
57.1    
57.5    
58.0    
58.4    
58.9    
59.4    
59.8    
60.3    
60.7    
61.2    
61.6    
62.1    
62.6    
63.0    
63.5    
63.9    
64.4    
64.8    
65.3    
65.8    
66.2    
66.7    
67.1    
67.6    
68.0    
68.5    
68.9    
69.4    
69.9    
70.3    
70.8    
71.2    
71.7    
72.1    
72.6    
73.1    
73.5    
74.0    
74.4    
74.9    
75.3    
75.8    
76.3    
76.7    
77.2    
77.6    
78.1    
78.5    
79.0    
79.5    
79.9    
80.4    
80.8    
81.3    
81.7    
82.2    
82.6    
83.1    
83.6    
84.0    
84.5    
84.9    
85.4    
85.8    
86.3    
86.8    
87.2    
87.7    
88.1    
88.6    
89.0    
89.5    
90.0    
90.4    
90.9    
91.3    
91.8    
92.2    
92.7    
93.2    
93.6    
94.1    
94.5    
95.0    
95.4    
95.9    
96.3    
96.8    
97.3    
97.7    
98.2    
98.6    
99.1    
99.5    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 19800, rend_intergenic: 17867  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 23 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 11333
-exon list size: 1


building trellis

33.3    
66.7    
-found 1 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support
	-no exons in range 1 - 10884