-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_10/scaffold_10_573100-756788

-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 GlimmerHMM_glimmerT_24552-T1
Valid prediction for snap_scaffold_10-snap.158-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GeneMark_model.41889_t
Valid prediction for GlimmerHMM_glimmerT_24531-T1
Valid prediction for GeneMark_model.41899_t
Valid prediction for snap_scaffold_10-snap.139-T1
Valid prediction for GeneMark_model.41901_t
Valid prediction for GlimmerHMM_glimmerT_24549-T1
Valid prediction for snap_scaffold_10-snap.142-T1
Valid prediction for snap_scaffold_10-snap.138-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_24554-T1
Valid prediction for GlimmerHMM_glimmerT_24523-T1
Valid prediction for GlimmerHMM_glimmerT_24551-T1
Valid prediction for snap_scaffold_10-snap.167-T1
Valid prediction for GlimmerHMM_glimmerT_24525-T1
Couldn't classify 124580, 124705
Sorry, prediction pasa_asmbl_5091.p1 fails validation.
(ATG)	 GG	122336-122558	GT	GGG
(CCC)	 AG	122764-122958	GT	GGG
(GCA)	 AG	123203-123355	GT	AGG
(CAA)	 AG	123657-123896	GT	TGG
(CTG)	 AG	124200-124348	GT	AGG
(GAC)	 AG	124580-124705	GT	AGG
-recovered pasa_asmbl_5091.p1, initial, 122336, 122558
-recovered pasa_asmbl_5091.p1, internal, 122764, 122958
-recovered pasa_asmbl_5091.p1, internal, 123203, 123355
-recovered pasa_asmbl_5091.p1, internal, 123657, 123896
-recovered pasa_asmbl_5091.p1, internal, 124200, 124348
-recovered pasa_asmbl_5091.p1, internal, 124580, 124705
Couldn't classify 110210, 110287
Sorry, prediction pasa_asmbl_4148.p1 fails validation.
(GAT)	 AG	110210-110287	GT	AGG
(AAA)	 AG	110398-110508	GT	AGG
(CAA)	 AG	110606-110728	GT	AGG
(ATG)	 AG	110906-110953	AC	AGA
-recovered pasa_asmbl_4148.p1, terminal, 110906, 110953
-recovered pasa_asmbl_4148.p1, internal, 110210, 110287
-recovered pasa_asmbl_4148.p1, internal, 110398, 110508
-recovered pasa_asmbl_4148.p1, internal, 110606, 110728
Valid prediction for GlimmerHMM_glimmerT_24535-T1
Valid prediction for GlimmerHMM_glimmerT_24543-T1
Valid prediction for snap_scaffold_10-snap.163-T1
Valid prediction for Augustus_model.g16452.t1
Valid prediction for Augustus_model.g16455.t1
Valid prediction for snap_scaffold_10-snap.164-T1
Valid prediction for GlimmerHMM_glimmerT_24532-T1
Valid prediction for snap_scaffold_10-snap.160-T1
Valid prediction for CodingQuarry_transcript_5250-T1
Couldn't classify 130662, 130819
Sorry, prediction pasa_asmbl_4150.p1 fails validation.
(CAG)	 TC	130662-130819	GT	AGG
(GTG)	 AG	130967-131192	GA	GAG
-recovered pasa_asmbl_4150.p1, terminal, 130967, 131192
Valid prediction for GeneMark_model.41896_t
Valid prediction for GeneMark_model.41905_t
Valid prediction for Augustus_model.g16461.t1
Valid prediction for snap_scaffold_10-snap.136-T1
Valid prediction for Augustus_model.g16437.t1
Valid prediction for GeneMark_model.41887_t
Valid prediction for GeneMark_model.41895_t
Valid prediction for snap_scaffold_10-snap.147-T1
Valid prediction for GeneMark_model.41885_t
Valid prediction for GlimmerHMM_glimmerT_24546-T1
Valid prediction for GeneMark_model.41894_t
Valid prediction for GeneMark_model.41886_t
Valid prediction for GeneMark_model.41884_t
Valid prediction for snap_scaffold_10-snap.156-T1
Valid prediction for GeneMark_model.41898_t
Valid prediction for GlimmerHMM_glimmerT_24542-T1
Valid prediction for snap_scaffold_10-snap.135-T1
Valid prediction for Augustus_model.g16456.t1
Valid prediction for Augustus_model.g16445.t1
Valid prediction for snap_scaffold_10-snap.143-T1
Valid prediction for snap_scaffold_10-snap.168-T1
Valid prediction for Augustus_model.g16451.t1
Valid prediction for GlimmerHMM_glimmerT_24522-T1
Valid prediction for snap_scaffold_10-snap.159-T1
Valid prediction for GlimmerHMM_glimmerT_24556-T1
Valid prediction for snap_scaffold_10-snap.169-T1
Valid prediction for CodingQuarry_transcript_5251-T1
Couldn't classify 134627, 135037
Sorry, prediction pasa_asmbl_2903.p1 fails validation.
(CAT)	 TC	134627-135037	TC	GAT
Valid prediction for GlimmerHMM_glimmerT_24530-T1
Couldn't classify 101259, 101317
Sorry, prediction pasa_asmbl_4146.p1 fails validation.
(CGT)	 GA	101259-101317	GT	TAG
(TCG)	 AG	103119-103149	GT	AGG
(TAC)	 AG	104033-104178	GT	AGG
(TAA)	 AG	104301-104392	GT	TAG
(TTG)	 AG	104585-104634	GC	AGG
-recovered pasa_asmbl_4146.p1, terminal, 104585, 104634
-recovered pasa_asmbl_4146.p1, internal, 103119, 103149
-recovered pasa_asmbl_4146.p1, internal, 104033, 104178
-recovered pasa_asmbl_4146.p1, internal, 104301, 104392
-recovered pasa_asmbl_4146.p1, internal, 104585, 104634
Valid prediction for GlimmerHMM_glimmerT_24526-T1
Valid prediction for snap_scaffold_10-snap.154-T1
Valid prediction for Augustus_model.g16439.t1
Valid prediction for GeneMark_model.41882_t
Valid prediction for snap_scaffold_10-snap.174-T1
Valid prediction for Augustus_model.g16454.t1
Valid prediction for GlimmerHMM_glimmerT_24527-T1
Valid prediction for GlimmerHMM_glimmerT_24529-T1
Valid prediction for Augustus_model.g16458.t1
Valid prediction for GeneMark_model.41900_t
Valid prediction for snap_scaffold_10-snap.140-T1
Valid prediction for Augustus_model.g16441.t1
Valid prediction for Augustus_model.g16459.t1
Valid prediction for GlimmerHMM_glimmerT_24547-T1
Valid prediction for Augustus_model.g16443.t1
Valid prediction for GlimmerHMM_glimmerT_24548-T1
Valid prediction for GeneMark_model.41897_t
Valid prediction for Augustus_model.g16436.t1
Couldn't classify 104301, 104397
Couldn't classify 104817, 104819
Sorry, prediction CodingQuarry_transcript_5249-T1 fails validation.
(ATG)	 AG	101298-101317	GT	TAG
(TCG)	 AG	103119-103149	GT	AGG
(TAC)	 AG	104033-104178	GT	AGG
(TAA)	 AG	104301-104397	TT	AGT
(TAG)	 AA	104817-104819	GT	AGG
-recovered CodingQuarry_transcript_5249-T1, initial, 101298, 101317
-recovered CodingQuarry_transcript_5249-T1, internal, 101298, 101317
-recovered CodingQuarry_transcript_5249-T1, internal, 103119, 103149
-recovered CodingQuarry_transcript_5249-T1, internal, 104033, 104178
Valid prediction for GlimmerHMM_glimmerT_24550-T1
Couldn't classify 88102, 88950
Sorry, prediction pasa_asmbl_4145.p1 fails validation.
(GCC)	 AA	88102-88950	AT	ACA
Valid prediction for snap_scaffold_10-snap.161-T1
Valid prediction for Augustus_model.g16440.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 GeneMark_model.41883_t
Valid prediction for GeneMark_model.41906_t
Valid prediction for GlimmerHMM_glimmerT_24540-T1
Valid prediction for CodingQuarry_transcript_5252-T1
Valid prediction for GlimmerHMM_glimmerT_24533-T1
Valid prediction for snap_scaffold_10-snap.144-T1
Valid prediction for GlimmerHMM_glimmerT_24537-T1
Valid prediction for GlimmerHMM_glimmerT_24544-T1
Valid prediction for Augustus_model.g16457.t1
Valid prediction for Augustus_model.g16450.t1
Valid prediction for snap_scaffold_10-snap.146-T1
Valid prediction for snap_scaffold_10-snap.150-T1
Valid prediction for Augustus_model.g16444.t1
Valid prediction for GeneMark_model.41892_t
Valid prediction for snap_scaffold_10-snap.153-T1
Valid prediction for snap_scaffold_10-snap.166-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g16453.t1
Valid prediction for snap_scaffold_10-snap.171-T1
Valid prediction for pasa_asmbl_2897.p1
Valid prediction for snap_scaffold_10-snap.175-T1
Valid prediction for snap_scaffold_10-snap.141-T1
Couldn't classify 123087, 123194
Sorry, prediction pasa_asmbl_2892.p1 fails validation.
(ATG)	 AG	121568-121711	GT	TGG
(CTG)	 AG	121970-122045	GT	AGG
(ACA)	 AG	122351-122425	GT	AGG
(AAG)	 AG	122598-122643	GT	AGG
(TGT)	 AG	122818-122935	GT	AGG
(GGG)	 AG	123087-123194	AC	CTA
-recovered pasa_asmbl_2892.p1, initial, 121568, 121711
-recovered pasa_asmbl_2892.p1, internal, 121568, 121711
-recovered pasa_asmbl_2892.p1, internal, 121970, 122045
-recovered pasa_asmbl_2892.p1, internal, 122351, 122425
-recovered pasa_asmbl_2892.p1, internal, 122598, 122643
-recovered pasa_asmbl_2892.p1, internal, 122818, 122935
Valid prediction for Augustus_model.g16463.t1
Valid prediction for HiQ_model.g16448.t1
Valid prediction for GeneMark_model.41903_t
Valid prediction for snap_scaffold_10-snap.173-T1
Valid prediction for GlimmerHMM_glimmerT_24557-T1
Valid prediction for Augustus_model.g16465.t1
Valid prediction for Augustus_model.g16442.t1
Couldn't classify 34814, 34992
Sorry, prediction pasa_asmbl_2910.p1 fails validation.
(AGC)	 CC	34814-34992	GT	CGG
(TCT)	 AG	35597-35915	AG	AAA
-recovered pasa_asmbl_2910.p1, terminal, 35597, 35915
Valid prediction for Augustus_model.g16460.t1
Valid prediction for Augustus_model.g16447.t1
Valid prediction for CodingQuarry_transcript_5248-T1
Valid prediction for GeneMark_model.41890_t
Valid prediction for GeneMark_model.41902_t
Valid prediction for snap_scaffold_10-snap.162-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_24528-T1
Valid prediction for GlimmerHMM_glimmerT_24555-T1
Valid prediction for snap_scaffold_10-snap.145-T1
Valid prediction for Augustus_model.g16446.t1
Valid prediction for Augustus_model.g16449.t1
Valid prediction for GlimmerHMM_glimmerT_24538-T1
Valid prediction for Augustus_model.g16462.t1
Valid prediction for GlimmerHMM_glimmerT_24524-T1
Valid prediction for GlimmerHMM_glimmerT_24539-T1
Valid prediction for snap_scaffold_10-snap.152-T1
Valid prediction for snap_scaffold_10-snap.170-T1
Valid prediction for GeneMark_model.41891_t
Valid prediction for pasa_asmbl_2904.p1
Valid prediction for snap_scaffold_10-snap.155-T1
Valid prediction for GlimmerHMM_glimmerT_24541-T1
Valid prediction for snap_scaffold_10-snap.172-T1
Valid prediction for GlimmerHMM_glimmerT_24553-T1
Valid prediction for GlimmerHMM_glimmerT_24545-T1
Valid prediction for snap_scaffold_10-snap.151-T1
Valid prediction for GeneMark_model.41888_t
Valid prediction for snap_scaffold_10-snap.149-T1
Valid prediction for snap_scaffold_10-snap.137-T1
Valid prediction for Augustus_model.g16464.t1
Valid prediction for Augustus_model.g16438.t1
Valid prediction for GlimmerHMM_glimmerT_24536-T1
Valid prediction for snap_scaffold_10-snap.165-T1
Valid prediction for snap_scaffold_10-snap.148-T1
Valid prediction for snap_scaffold_10-snap.157-T1
Couldn't classify 3009, 3320
Sorry, prediction pasa_asmbl_2917.p1 fails validation.
(ATG)	 AG	3009-3320	GA	AAG
Valid prediction for GeneMark_model.41893_t
Valid prediction for GlimmerHMM_glimmerT_24534-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)
-building DP trellis

-building trellis in range 1 - 183689
-exon list size: 416


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.4    
1.7    
1.9    
2.2    
2.4    
2.6    
2.9    
3.1    
3.3    
3.6    
3.8    
4.1    
4.3    
4.5    
4.8    
5.0    
5.3    
5.5    
5.7    
6.0    
6.2    
6.5    
6.7    
6.9    
7.2    
7.4    
7.7    
7.9    
8.1    
8.4    
8.6    
8.9    
9.1    
9.3    
9.6    
9.8    
10.0    
10.3    
10.5    
10.8    
11.0    
11.2    
11.5    
11.7    
12.0    
12.2    
12.4    
12.7    
12.9    
13.2    
13.4    
13.6    
13.9    
14.1    
14.4    
14.6    
14.8    
15.1    
15.3    
15.6    
15.8    
16.0    
16.3    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
17.9    
18.2    
18.4    
18.7    
18.9    
19.1    
19.4    
19.6    
19.9    
20.1    
20.3    
20.6    
20.8    
21.1    
21.3    
21.5    
21.8    
22.0    
22.2    
22.5    
22.7    
23.0    
23.2    
23.4    
23.7    
23.9    
24.2    
24.4    
24.6    
24.9    
25.1    
25.4    
25.6    
25.8    
26.1    
26.3    
26.6    
26.8    
27.0    
27.3    
27.5    
27.8    
28.0    
28.2    
28.5    
28.7    
28.9    
29.2    
29.4    
29.7    
29.9    
30.1    
30.4    
30.6    
30.9    
31.1    
31.3    
31.6    
31.8    
32.1    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.4    
34.7    
34.9    
35.2    
35.4    
35.6    
35.9    
36.1    
36.4    
36.6    
36.8    
37.1    
37.3    
37.6    
37.8    
38.0    
38.3    
38.5    
38.8    
39.0    
39.2    
39.5    
39.7    
40.0    
40.2    
40.4    
40.7    
40.9    
41.1    
41.4    
41.6    
41.9    
42.1    
42.3    
42.6    
42.8    
43.1    
43.3    
43.5    
43.8    
44.0    
44.3    
44.5    
44.7    
45.0    
45.2    
45.5    
45.7    
45.9    
46.2    
46.4    
46.7    
46.9    
47.1    
47.4    
47.6    
47.8    
48.1    
48.3    
48.6    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.4    
51.7    
51.9    
52.2    
52.4    
52.6    
52.9    
53.1    
53.3    
53.6    
53.8    
54.1    
54.3    
54.5    
54.8    
55.0    
55.3    
55.5    
55.7    
56.0    
56.2    
56.5    
56.7    
56.9    
57.2    
57.4    
57.7    
57.9    
58.1    
58.4    
58.6    
58.9    
59.1    
59.3    
59.6    
59.8    
60.0    
60.3    
60.5    
60.8    
61.0    
61.2    
61.5    
61.7    
62.0    
62.2    
62.4    
62.7    
62.9    
63.2    
63.4    
63.6    
63.9    
64.1    
64.4    
64.6    
64.8    
65.1    
65.3    
65.6    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.5    
67.7    
67.9    
68.2    
68.4    
68.7    
68.9    
69.1    
69.4    
69.6    
69.9    
70.1    
70.3    
70.6    
70.8    
71.1    
71.3    
71.5    
71.8    
72.0    
72.2    
72.5    
72.7    
73.0    
73.2    
73.4    
73.7    
73.9    
74.2    
74.4    
74.6    
74.9    
75.1    
75.4    
75.6    
75.8    
76.1    
76.3    
76.6    
76.8    
77.0    
77.3    
77.5    
77.8    
78.0    
78.2    
78.5    
78.7    
78.9    
79.2    
79.4    
79.7    
79.9    
80.1    
80.4    
80.6    
80.9    
81.1    
81.3    
81.6    
81.8    
82.1    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.7    
84.0    
84.2    
84.4    
84.7    
84.9    
85.2    
85.4    
85.6    
85.9    
86.1    
86.4    
86.6    
86.8    
87.1    
87.3    
87.6    
87.8    
88.0    
88.3    
88.5    
88.8    
89.0    
89.2    
89.5    
89.7    
90.0    
90.2    
90.4    
90.7    
90.9    
91.1    
91.4    
91.6    
91.9    
92.1    
92.3    
92.6    
92.8    
93.1    
93.3    
93.5    
93.8    
94.0    
94.3    
94.5    
94.7    
95.0    
95.2    
95.5    
95.7    
95.9    
96.2    
96.4    
96.7    
96.9    
97.1    
97.4    
97.6    
97.8    
98.1    
98.3    
98.6    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 37 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 35 predictions persist after filtering for low support