-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_16/scaffold_16_784199-1053233

-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_37758-T1
Valid prediction for HiQ_model.g25186.t1
Valid prediction for snap_scaffold_16-snap.171-T1
Valid prediction for snap_scaffold_16-snap.154-T1
Valid prediction for GlimmerHMM_glimmerT_37770-T1
Valid prediction for snap_scaffold_16-snap.172-T1
Valid prediction for Augustus_model.g25184.t1
Valid prediction for snap_scaffold_16-snap.136-T1
Valid prediction for snap_scaffold_16-snap.160-T1
Couldn't classify 18468, 18629
Sorry, prediction pasa_asmbl_16055.p1 fails validation.
(AGG)	 CC	18468-18629	GT	TGG
(GCG)	 AG	19490-19623	GT	AGG
(GGA)	 AG	20124-20264	GT	GGG
(GCT)	 AG	20638-20758	GT	AGG
(GTG)	 AG	21266-21370	GT	AGG
(TTG)	 AG	22001-22097	GT	GGG
(GAA)	 AG	22205-22277	GT	TGG
(CTT)	 AG	22409-22508	AA	AGA
-recovered pasa_asmbl_16055.p1, terminal, 22409, 22508
-recovered pasa_asmbl_16055.p1, internal, 19490, 19623
-recovered pasa_asmbl_16055.p1, internal, 20124, 20264
-recovered pasa_asmbl_16055.p1, internal, 20638, 20758
-recovered pasa_asmbl_16055.p1, internal, 21266, 21370
-recovered pasa_asmbl_16055.p1, internal, 22001, 22097
-recovered pasa_asmbl_16055.p1, internal, 22205, 22277
Valid prediction for snap_scaffold_16-snap.143-T1
Valid prediction for Augustus_model.g25188.t1
Valid prediction for GlimmerHMM_glimmerT_37741-T1
Valid prediction for Augustus_model.g25182.t1
Valid prediction for CodingQuarry_transcript_19892-T1
Valid prediction for snap_scaffold_16-snap.161-T1
Valid prediction for GlimmerHMM_glimmerT_37763-T1
Valid prediction for GlimmerHMM_glimmerT_37766-T1
Couldn't classify 45736, 45915
Couldn't classify 47695, 47796
Sorry, prediction pasa_asmbl_16059.p1 fails validation.
(GTT)	 AG	45736-45915	GT	AGG
(GTT)	 AG	46007-46081	GT	CAG
(ATC)	 AG	46234-46305	GT	AGG
(GAT)	 AG	46908-46988	GT	AGG
(GTA)	 AG	47695-47796	AC	ACA
-recovered pasa_asmbl_16059.p1, internal, 45736, 45915
-recovered pasa_asmbl_16059.p1, internal, 46007, 46081
-recovered pasa_asmbl_16059.p1, internal, 46234, 46305
-recovered pasa_asmbl_16059.p1, internal, 46908, 46988
Valid prediction for Augustus_model.g25155.t1
Valid prediction for snap_scaffold_16-snap.137-T1
Valid prediction for Augustus_model.g25185.t1
Valid prediction for GlimmerHMM_glimmerT_37774-T1
Valid prediction for GlimmerHMM_glimmerT_37754-T1
Valid prediction for GlimmerHMM_glimmerT_37750-T1
Valid prediction for GlimmerHMM_glimmerT_37742-T1
Valid prediction for Augustus_model.g25178.t1
Valid prediction for snap_scaffold_16-snap.135-T1
Valid prediction for GlimmerHMM_glimmerT_37743-T1
Valid prediction for CodingQuarry_transcript_19894-T1
Valid prediction for Augustus_model.g25173.t1
Valid prediction for HiQ_model.g25162.t1
Valid prediction for Augustus_model.g25168.t1
Valid prediction for GlimmerHMM_glimmerT_37768-T1
Valid prediction for GlimmerHMM_glimmerT_37753-T1
Valid prediction for Augustus_model.g25164.t1
Valid prediction for GlimmerHMM_glimmerT_37756-T1
Valid prediction for snap_scaffold_16-snap.166-T1
Valid prediction for snap_scaffold_16-snap.151-T1
Valid prediction for snap_scaffold_16-snap.156-T1
Valid prediction for Augustus_model.g25163.t1
Valid prediction for GlimmerHMM_glimmerT_37748-T1
Valid prediction for HiQ_model.g25154.t1
Valid prediction for Augustus_model.g25180.t1
Valid prediction for snap_scaffold_16-snap.134-T1
Valid prediction for snap_scaffold_16-snap.145-T1
Valid prediction for CodingQuarry_transcript_19891-T1
Valid prediction for GlimmerHMM_glimmerT_37752-T1
Couldn't classify 10601, 10968
Couldn't classify 14712, 14792
Sorry, prediction pasa_asmbl_16053.p1 fails validation.
(GTG)	 CA	10601-10968	GT	GGG
(GTG)	 AG	11179-11274	GT	GGG
(GTG)	 AG	11453-11627	GT	CGG
(GCT)	 AG	12692-12746	GT	GGG
(AAC)	 AG	13338-13422	GT	GGG
(GCT)	 AG	13622-13750	GT	GTG
(CAC)	 AG	14148-14220	GT	AGG
(TCC)	 AG	14407-14478	GT	AAG
(ATA)	 AG	14712-14792	TT	GTT
-recovered pasa_asmbl_16053.p1, internal, 11179, 11274
-recovered pasa_asmbl_16053.p1, internal, 11453, 11627
-recovered pasa_asmbl_16053.p1, internal, 12692, 12746
-recovered pasa_asmbl_16053.p1, internal, 13338, 13422
-recovered pasa_asmbl_16053.p1, internal, 13622, 13750
-recovered pasa_asmbl_16053.p1, internal, 14148, 14220
-recovered pasa_asmbl_16053.p1, internal, 14407, 14478
Valid prediction for snap_scaffold_16-snap.170-T1
Valid prediction for GlimmerHMM_glimmerT_37772-T1
Valid prediction for Augustus_model.g25171.t1
Valid prediction for Augustus_model.g25169.t1
Valid prediction for snap_scaffold_16-snap.169-T1
Valid prediction for snap_scaffold_16-snap.153-T1
Valid prediction for pasa_asmbl_16050.p1
Couldn't classify 59516, 59614
Sorry, prediction pasa_asmbl_16062.p1 fails validation.
(GTG)	 AG	59516-59614	GT	CGG
(GCT)	 AG	59934-60020	GT	AGG
(GTT)	 AG	61242-61301	GT	CTG
(GTG)	 AG	61430-61563	GT	AGG
(TGA)	 AG	61884-61938	GT	AGG
(TGT)	 AG	62058-62109	GT	AGG
(GGA)	 AG	62205-62338	GT	CTG
(CAA)	 AG	62504-62740	GT	ATG
(GCA)	 AG	63196-63309	AA	AGA
-recovered pasa_asmbl_16062.p1, terminal, 63196, 63309
-recovered pasa_asmbl_16062.p1, internal, 59516, 59614
-recovered pasa_asmbl_16062.p1, internal, 59934, 60020
-recovered pasa_asmbl_16062.p1, internal, 61242, 61301
-recovered pasa_asmbl_16062.p1, internal, 61430, 61563
-recovered pasa_asmbl_16062.p1, internal, 61884, 61938
-recovered pasa_asmbl_16062.p1, internal, 62058, 62109
-recovered pasa_asmbl_16062.p1, internal, 62205, 62338
-recovered pasa_asmbl_16062.p1, internal, 62504, 62740
Valid prediction for GlimmerHMM_glimmerT_37761-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 GlimmerHMM_glimmerT_37775-T1
Valid prediction for snap_scaffold_16-snap.165-T1
Valid prediction for Augustus_model.g25176.t1
Valid prediction for snap_scaffold_16-snap.138-T1
Valid prediction for snap_scaffold_16-snap.155-T1
Valid prediction for Augustus_model.g25170.t1
Valid prediction for snap_scaffold_16-snap.139-T1
Valid prediction for GlimmerHMM_glimmerT_37755-T1
Valid prediction for snap_scaffold_16-snap.167-T1
Valid prediction for Augustus_model.g25166.t1
Valid prediction for GlimmerHMM_glimmerT_37769-T1
Couldn't classify 118059, 118388
Sorry, prediction pasa_asmbl_16917.p1 fails validation.
(GGC)	 CA	118059-118388	GA	GAG
Valid prediction for snap_scaffold_16-snap.148-T1
Valid prediction for GlimmerHMM_glimmerT_37757-T1
Valid prediction for GlimmerHMM_glimmerT_37760-T1
Valid prediction for GlimmerHMM_glimmerT_37751-T1
Valid prediction for snap_scaffold_16-snap.164-T1
Valid prediction for snap_scaffold_16-snap.141-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.142-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_37745-T1
Valid prediction for Augustus_model.g25159.t1
Valid prediction for snap_scaffold_16-snap.163-T1
Valid prediction for snap_scaffold_16-snap.150-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_37744-T1
Valid prediction for snap_scaffold_16-snap.140-T1
Valid prediction for snap_scaffold_16-snap.175-T1
Valid prediction for Augustus_model.g25161.t1
Valid prediction for GlimmerHMM_glimmerT_37764-T1
Valid prediction for GlimmerHMM_glimmerT_37759-T1
Couldn't classify 104855, 105002
Sorry, prediction pasa_asmbl_16919.p1 fails validation.
(TTT)	 CC	104855-105002	GT	AGG
(GGA)	 AG	107148-107298	GT	AGG
(GTA)	 AG	107407-107522	GT	TGG
(ATA)	 AG	108239-108345	AT	AAA
-recovered pasa_asmbl_16919.p1, terminal, 108239, 108345
-recovered pasa_asmbl_16919.p1, internal, 107148, 107298
-recovered pasa_asmbl_16919.p1, internal, 107407, 107522
Valid prediction for Augustus_model.g25179.t1
Valid prediction for Augustus_model.g25177.t1
Valid prediction for GlimmerHMM_glimmerT_37765-T1
Valid prediction for Augustus_model.g25165.t1
Valid prediction for Augustus_model.g25175.t1
Valid prediction for snap_scaffold_16-snap.158-T1
Valid prediction for GlimmerHMM_glimmerT_37749-T1
Valid prediction for GlimmerHMM_glimmerT_37773-T1
Valid prediction for pasa_asmbl_16908.p1
Couldn't classify 143004, 143099
Couldn't classify 146816, 146891
Sorry, prediction pasa_asmbl_16915.p1 fails validation.
(GAG)	 AT	143004-143099	GT	AGG
(GGT)	 AG	143250-143333	GT	AGG
(GGA)	 AG	143539-143657	GT	AGG
(TCT)	 AG	143736-143888	GT	AGG
(AAA)	 AG	146816-146891	CC	GAC
-recovered pasa_asmbl_16915.p1, internal, 143250, 143333
-recovered pasa_asmbl_16915.p1, internal, 143539, 143657
-recovered pasa_asmbl_16915.p1, internal, 143736, 143888
Valid prediction for GlimmerHMM_glimmerT_37747-T1
Valid prediction for snap_scaffold_16-snap.173-T1
Valid prediction for Augustus_model.g25189.t1
Valid prediction for Augustus_model.g25187.t1
Valid prediction for snap_scaffold_16-snap.157-T1
Valid prediction for snap_scaffold_16-snap.162-T1
Valid prediction for Augustus_model.g25167.t1
Valid prediction for snap_scaffold_16-snap.152-T1
Valid prediction for snap_scaffold_16-snap.168-T1
Valid prediction for Augustus_model.g25172.t1
Valid prediction for Augustus_model.g25183.t1
Valid prediction for GlimmerHMM_glimmerT_37762-T1
Valid prediction for snap_scaffold_16-snap.146-T1
Valid prediction for Augustus_model.g25158.t1
Valid prediction for snap_scaffold_16-snap.144-T1
Valid prediction for snap_scaffold_16-snap.174-T1
Valid prediction for GlimmerHMM_glimmerT_37771-T1
Valid prediction for Augustus_model.g25157.t1
Valid prediction for snap_scaffold_16-snap.149-T1
Valid prediction for GlimmerHMM_glimmerT_37746-T1
Valid prediction for Augustus_model.g25174.t1
Valid prediction for snap_scaffold_16-snap.159-T1
Valid prediction for GlimmerHMM_glimmerT_37767-T1
Valid prediction for snap_scaffold_16-snap.147-T1
Valid prediction for Augustus_model.g25181.t1
Valid prediction for Augustus_model.g25156.t1
Valid prediction for Augustus_model.g25160.t1
Valid prediction for CodingQuarry_transcript_19896-T1

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

-building trellis in range 1 - 269035
-exon list size: 366


building trellis

0.3    
0.5    
0.8    
1.1    
1.4    
1.6    
1.9    
2.2    
2.4    
2.7    
3.0    
3.3    
3.5    
3.8    
4.1    
4.3    
4.6    
4.9    
5.2    
5.4    
5.7    
6.0    
6.2    
6.5    
6.8    
7.1    
7.3    
7.6    
7.9    
8.2    
8.4    
8.7    
9.0    
9.2    
9.5    
9.8    
10.1    
10.3    
10.6    
10.9    
11.1    
11.4    
11.7    
12.0    
12.2    
12.5    
12.8    
13.0    
13.3    
13.6    
13.9    
14.1    
14.4    
14.7    
14.9    
15.2    
15.5    
15.8    
16.0    
16.3    
16.6    
16.8    
17.1    
17.4    
17.7    
17.9    
18.2    
18.5    
18.8    
19.0    
19.3    
19.6    
19.8    
20.1    
20.4    
20.7    
20.9    
21.2    
21.5    
21.7    
22.0    
22.3    
22.6    
22.8    
23.1    
23.4    
23.6    
23.9    
24.2    
24.5    
24.7    
25.0    
25.3    
25.5    
25.8    
26.1    
26.4    
26.6    
26.9    
27.2    
27.4    
27.7    
28.0    
28.3    
28.5    
28.8    
29.1    
29.3    
29.6    
29.9    
30.2    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.3    
32.6    
32.9    
33.2    
33.4    
33.7    
34.0    
34.2    
34.5    
34.8    
35.1    
35.3    
35.6    
35.9    
36.1    
36.4    
36.7    
37.0    
37.2    
37.5    
37.8    
38.0    
38.3    
38.6    
38.9    
39.1    
39.4    
39.7    
39.9    
40.2    
40.5    
40.8    
41.0    
41.3    
41.6    
41.8    
42.1    
42.4    
42.7    
42.9    
43.2    
43.5    
43.8    
44.0    
44.3    
44.6    
44.8    
45.1    
45.4    
45.7    
45.9    
46.2    
46.5    
46.7    
47.0    
47.3    
47.6    
47.8    
48.1    
48.4    
48.6    
48.9    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.1    
51.4    
51.6    
51.9    
52.2    
52.4    
52.7    
53.0    
53.3    
53.5    
53.8    
54.1    
54.3    
54.6    
54.9    
55.2    
55.4    
55.7    
56.0    
56.2    
56.5    
56.8    
57.1    
57.3    
57.6    
57.9    
58.2    
58.4    
58.7    
59.0    
59.2    
59.5    
59.8    
60.1    
60.3    
60.6    
60.9    
61.1    
61.4    
61.7    
62.0    
62.2    
62.5    
62.8    
63.0    
63.3    
63.6    
63.9    
64.1    
64.4    
64.7    
64.9    
65.2    
65.5    
65.8    
66.0    
66.3    
66.6    
66.8    
67.1    
67.4    
67.7    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.8    
70.1    
70.4    
70.7    
70.9    
71.2    
71.5    
71.7    
72.0    
72.3    
72.6    
72.8    
73.1    
73.4    
73.6    
73.9    
74.2    
74.5    
74.7    
75.0    
75.3    
75.5    
75.8    
76.1    
76.4    
76.6    
76.9    
77.2    
77.4    
77.7    
78.0    
78.3    
78.5    
78.8    
79.1    
79.3    
79.6    
79.9    
80.2    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.1    
82.3    
82.6    
82.9    
83.2    
83.4    
83.7    
84.0    
84.2    
84.5    
84.8    
85.1    
85.3    
85.6    
85.9    
86.1    
86.4    
86.7    
87.0    
87.2    
87.5    
87.8    
88.0    
88.3    
88.6    
88.9    
89.1    
89.4    
89.7    
89.9    
90.2    
90.5    
90.8    
91.0    
91.3    
91.6    
91.8    
92.1    
92.4    
92.7    
92.9    
93.2    
93.5    
93.8    
94.0    
94.3    
94.6    
94.8    
95.1    
95.4    
95.7    
95.9    
96.2    
96.5    
96.7    
97.0    
97.3    
97.6    
97.8    
98.1    
98.4    
98.6    
98.9    
99.2    
99.5    
99.7    
-found 44 predictions from path traversal

-reporting highest scoring path thru the trellis.
-found 44 predictions persist after filtering for low support