-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_355

-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 CodingQuarry_transcript_46447-T1
Couldn't classify 102, 137
Sorry, prediction snap_scaffold_355-snap.1-T1 fails validation.
(AAA)	 AG	102-137	GT	GGG
(TGT)	 AG	496-563	GT	ACG
(GTA)	 AG	1147-1189	GT	AGG
(CCA)	 AG	1372-1452	GT	AGG
(GAC)	 AG	1461-1598	GT	TGG
(GGC)	 AG	1919-1997	GT	CGG
(AGA)	 AG	2292-2388	GT	GGG
(GAT)	 AG	3135-3219	GT	AGG
(ATC)	 AG	3525-3641	GT	CTG
(ACG)	 AG	4274-4355	GT	TGG
(AGA)	 AG	5837-5934	GG	GAG
-recovered snap_scaffold_355-snap.1-T1, terminal, 5837, 5934
-recovered snap_scaffold_355-snap.1-T1, internal, 102, 137
-recovered snap_scaffold_355-snap.1-T1, internal, 496, 563
-recovered snap_scaffold_355-snap.1-T1, internal, 1147, 1189
-recovered snap_scaffold_355-snap.1-T1, internal, 1372, 1452
-recovered snap_scaffold_355-snap.1-T1, internal, 1461, 1598
-recovered snap_scaffold_355-snap.1-T1, internal, 1919, 1997
-recovered snap_scaffold_355-snap.1-T1, internal, 2292, 2388
-recovered snap_scaffold_355-snap.1-T1, internal, 3135, 3219
-recovered snap_scaffold_355-snap.1-T1, internal, 3525, 3641
-recovered snap_scaffold_355-snap.1-T1, internal, 4274, 4355
Sorry, intron length (7) is less than minimum required (10)
Couldn't classify 5814, 5923
Sorry, prediction GlimmerHMM_glimmerT_61745-T1 fails validation.
(ATG)	 TG	1378-1452	GT	AGG
(GGC)	 AG	1919-1997	GT	CGG
(AGA)	 AG	2292-2388	GT	GGG
(GAT)	 AG	3135-3219	GT	AGG
(ATC)	 AG	3525-3645	GT	GGG
(ACG)	 AG	4274-4355	GT	TGG
(TGT)	 AG	5814-5923	GT	CGG
-recovered GlimmerHMM_glimmerT_61745-T1, initial, 1378, 1452
-recovered GlimmerHMM_glimmerT_61745-T1, internal, 1919, 1997
-recovered GlimmerHMM_glimmerT_61745-T1, internal, 2292, 2388
-recovered GlimmerHMM_glimmerT_61745-T1, internal, 3135, 3219
-recovered GlimmerHMM_glimmerT_61745-T1, internal, 3525, 3645
-recovered GlimmerHMM_glimmerT_61745-T1, internal, 4274, 4355
-recovered GlimmerHMM_glimmerT_61745-T1, internal, 5814, 5923
Couldn't classify 3525, 3644
Sorry, prediction pasa_asmbl_40988.p1 fails validation.
(ATG)	 AG	532-563	GT	ACG
(GTA)	 AG	1147-1189	GT	AGG
(CCA)	 AG	1372-1452	GT	AGG
(GGC)	 AG	1919-1997	GT	CGG
(AGA)	 AG	2292-2388	GT	GGG
(GAT)	 AG	3135-3219	GT	AGG
(ATC)	 AG	3525-3644	GG	TGG
-recovered pasa_asmbl_40988.p1, initial, 532, 563
-recovered pasa_asmbl_40988.p1, internal, 532, 563
-recovered pasa_asmbl_40988.p1, internal, 1147, 1189
-recovered pasa_asmbl_40988.p1, internal, 1372, 1452
-recovered pasa_asmbl_40988.p1, internal, 1919, 1997
-recovered pasa_asmbl_40988.p1, internal, 2292, 2388
-recovered pasa_asmbl_40988.p1, internal, 3135, 3219
Couldn't classify 102, 137
Sorry, prediction Augustus_model.g41041.t1 fails validation.
(AAA)	 AG	102-137	GT	GGG
(TGT)	 AG	496-563	GT	ACG
(GTA)	 AG	1147-1189	GT	AGG
(CCA)	 AG	1372-1452	GT	AGG
(GGC)	 AG	1919-1997	GT	CGG
(AGA)	 AG	2292-2388	GT	GGG
(GAT)	 AG	3135-3219	GT	AGG
(ATC)	 AG	3525-3645	GT	GGG
(ACG)	 AG	4274-4351	GT	ATG
(TAG)	 AG	5439-5500	GT	GGG
(ATC)	 AG	5567-5579	GT	TGG
(AGA)	 AG	5837-5923	GT	CGG
(TGG)	 AG	6360-6436	AG	GAA
-recovered Augustus_model.g41041.t1, terminal, 6360, 6436
-recovered Augustus_model.g41041.t1, internal, 102, 137
-recovered Augustus_model.g41041.t1, internal, 496, 563
-recovered Augustus_model.g41041.t1, internal, 1147, 1189
-recovered Augustus_model.g41041.t1, internal, 1372, 1452
-recovered Augustus_model.g41041.t1, internal, 1919, 1997
-recovered Augustus_model.g41041.t1, internal, 2292, 2388
-recovered Augustus_model.g41041.t1, internal, 3135, 3219
-recovered Augustus_model.g41041.t1, internal, 3525, 3645
-recovered Augustus_model.g41041.t1, internal, 4274, 4351
-recovered Augustus_model.g41041.t1, internal, 5439, 5500
-recovered Augustus_model.g41041.t1, internal, 5567, 5579
-recovered Augustus_model.g41041.t1, internal, 5837, 5923

-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 snap_scaffold_355-snap.2-T1
Couldn't classify 1370, 1415
Couldn't classify 7689, 7727
Sorry, prediction GeneMark_model.107402_t fails validation.
(GGG)	 AG	1370-1415	GT	AGG
(GTC)	 AG	1522-1528	GT	AGG
(GGT)	 AG	2132-2204	GT	GAG
(GTT)	 AG	2249-2332	GT	CTG
(GGA)	 AG	3329-3343	GT	GAG
(GTG)	 AG	3420-3509	GT	TGG
(GTG)	 AG	4037-4253	GT	CTG
(TGG)	 AG	5399-5433	GT	CAG
(AGG)	 AG	5540-5644	GT	GAG
(AAC)	 AG	5666-5677	GT	GTG
(AGG)	 AG	5814-5885	GT	CTG
(CCC)	 AG	6013-6456	GT	AAG
(AGA)	 AG	6815-6885	GT	GAG
(GTG)	 AG	7183-7224	GT	AGG
(AGA)	 AG	7689-7727	GT	AGG
-recovered GeneMark_model.107402_t, terminal, 7183, 7224
-recovered GeneMark_model.107402_t, internal, 1370, 1415
-recovered GeneMark_model.107402_t, internal, 1522, 1528
-recovered GeneMark_model.107402_t, internal, 2132, 2204
-recovered GeneMark_model.107402_t, internal, 2249, 2332
-recovered GeneMark_model.107402_t, internal, 3329, 3343
-recovered GeneMark_model.107402_t, internal, 3420, 3509
-recovered GeneMark_model.107402_t, internal, 4037, 4253
-recovered GeneMark_model.107402_t, internal, 5399, 5433
-recovered GeneMark_model.107402_t, internal, 5540, 5644
-recovered GeneMark_model.107402_t, internal, 5666, 5677
-recovered GeneMark_model.107402_t, internal, 5814, 5885
-recovered GeneMark_model.107402_t, internal, 6013, 6456
-recovered GeneMark_model.107402_t, internal, 6815, 6885
-recovered GeneMark_model.107402_t, internal, 7183, 7224
-recovered GeneMark_model.107402_t, internal, 7689, 7727

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 5934, rend_intergenic: 1295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 7801
-exon list size: 78


building trellis

1.2    
2.5    
3.8    
5.0    
6.2    
7.5    
8.8    
10.0    
11.2    
12.5    
13.8    
15.0    
16.2    
17.5    
18.8    
20.0    
21.2    
22.5    
23.8    
25.0    
26.2    
27.5    
28.7    
30.0    
31.2    
32.5    
33.8    
35.0    
36.2    
37.5    
38.8    
40.0    
41.2    
42.5    
43.8    
45.0    
46.2    
47.5    
48.8    
50.0    
51.2    
52.5    
53.8    
55.0    
56.2    
57.5    
58.8    
60.0    
61.3    
62.5    
63.7    
65.0    
66.2    
67.5    
68.8    
70.0    
71.2    
72.5    
73.8    
75.0    
76.2    
77.5    
78.8    
80.0    
81.2    
82.5    
83.8    
85.0    
86.2    
87.5    
88.8    
90.0    
91.2    
92.5    
93.8    
95.0    
96.2    
97.5    
98.8    
-found 1 predictions from path traversal
Error with prediction: snap lend_intergenic: 5934, rend_intergenic: 1295  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 1 predictions persist after filtering for low support