-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_173

-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: +)Couldn't classify 18, 202
Sorry, prediction GeneMark_model.106822_t fails validation.
(TGT)	 AG	18-202	GT	ACG
(CAC)	 AG	1991-2051	GT	ATG
(AAA)	 AG	2157-2164	GT	CAG
(TGT)	 AG	2348-2371	GT	AAG
(TGG)	 AG	2734-2760	GT	GAG
(AGG)	 AG	3254-3286	GT	GAG
(TAG)	 AG	3423-3491	GT	AGG
(GGG)	 AG	3660-3677	GT	TGG
(GGC)	 AG	5075-5212	GT	GGG
(ACA)	 AG	5241-5710	GT	GAG
(TCC)	 AG	6460-6542	CT	AGC
-recovered GeneMark_model.106822_t, terminal, 6460, 6542
-recovered GeneMark_model.106822_t, internal, 18, 202
-recovered GeneMark_model.106822_t, internal, 1991, 2051
-recovered GeneMark_model.106822_t, internal, 2157, 2164
-recovered GeneMark_model.106822_t, internal, 2348, 2371
-recovered GeneMark_model.106822_t, internal, 2734, 2760
-recovered GeneMark_model.106822_t, internal, 3254, 3286
-recovered GeneMark_model.106822_t, internal, 3423, 3491
-recovered GeneMark_model.106822_t, internal, 3660, 3677
-recovered GeneMark_model.106822_t, internal, 5075, 5212
-recovered GeneMark_model.106822_t, internal, 5241, 5710
Couldn't classify 1, 228
Sorry, prediction Augustus_model.g40866.t1 fails validation.
(CCC)	 CC	1-228	GT	TGG
(GTG)	 AG	778-854	GT	TGG
(TCC)	 AG	1941-1988	AG	AGA
-recovered Augustus_model.g40866.t1, terminal, 1941, 1988
-recovered Augustus_model.g40866.t1, internal, 778, 854
Couldn't classify 10347, 10545
Sorry, prediction snap_scaffold_173-snap.2-T1 fails validation.
(ATG)	 TA	1863-1984	GT	AAG
(AGA)	 AG	5027-5212	GT	GGG
(GTG)	 AG	5820-5866	GT	AGG
(TCC)	 AG	6460-6524	GT	CGG
(AGA)	 AG	9030-9538	GT	AGG
(AAA)	 AG	10347-10545	GT	GGG
-recovered snap_scaffold_173-snap.2-T1, initial, 1863, 1984
-recovered snap_scaffold_173-snap.2-T1, internal, 5027, 5212
-recovered snap_scaffold_173-snap.2-T1, internal, 5820, 5866
-recovered snap_scaffold_173-snap.2-T1, internal, 6460, 6524
-recovered snap_scaffold_173-snap.2-T1, internal, 9030, 9538
-recovered snap_scaffold_173-snap.2-T1, internal, 10347, 10545
Couldn't classify 10426, 10545
Sorry, prediction GeneMark_model.106824_t fails validation.
(ATG)	 GA	8906-8922	GT	GCG
(AGA)	 AG	9048-9104	GT	GGG
(AGA)	 AG	9131-9280	GT	GAG
(TGA)	 AG	9307-9336	GT	GAG
(AAG)	 AG	9359-9533	GT	CAG
(CAC)	 AG	10426-10545	GT	GGG
-recovered GeneMark_model.106824_t, initial, 8906, 8922
-recovered GeneMark_model.106824_t, internal, 9048, 9104
-recovered GeneMark_model.106824_t, internal, 9131, 9280
-recovered GeneMark_model.106824_t, internal, 9307, 9336
-recovered GeneMark_model.106824_t, internal, 9359, 9533
-recovered GeneMark_model.106824_t, internal, 10426, 10545
Couldn't classify 10347, 10534
Sorry, prediction GlimmerHMM_glimmerT_61449-T1 fails validation.
(ATG)	 AT	4959-5119	GT	AGG
(AAA)	 AG	10347-10534	GT	TGG
-recovered GlimmerHMM_glimmerT_61449-T1, initial, 4959, 5119
-recovered GlimmerHMM_glimmerT_61449-T1, internal, 10347, 10534
Couldn't classify 3, 228
Sorry, prediction pasa_asmbl_19585.p1 fails validation.
(CCT)	 CC	3-228	GT	TGG
(GTG)	 AG	778-911	TC	GAT
-recovered pasa_asmbl_19585.p1, terminal, 778, 911

-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.g40867.t1
Couldn't classify 363, 480
Couldn't classify 10058, 10112
Sorry, prediction snap_scaffold_173-snap.1-T1 fails validation.
(GTG)	 AG	363-480	GT	GGG
(ATG)	 AG	1129-1196	GT	CGG
(AGC)	 AG	3953-4047	GT	CGG
(CTA)	 AG	4376-4489	GT	TTG
(AAG)	 AG	4534-4611	GT	TGG
(GCC)	 AG	7391-7483	GT	AGG
(CGC)	 AG	9141-9163	GT	CGG
(AAG)	 AG	10058-10112	GT	CTG
add_exon() Sorry, snap_scaffold_173-snap.1-T1 1129-1196-initial-1 is invalid.
-recovered snap_scaffold_173-snap.1-T1, initial, 1129, 1196
-recovered snap_scaffold_173-snap.1-T1, internal, 363, 480
-recovered snap_scaffold_173-snap.1-T1, internal, 1129, 1196
-recovered snap_scaffold_173-snap.1-T1, internal, 3953, 4047
-recovered snap_scaffold_173-snap.1-T1, internal, 4376, 4489
-recovered snap_scaffold_173-snap.1-T1, internal, 4534, 4611
-recovered snap_scaffold_173-snap.1-T1, internal, 7391, 7483
-recovered snap_scaffold_173-snap.1-T1, internal, 9141, 9163
-recovered snap_scaffold_173-snap.1-T1, internal, 10058, 10112
Valid prediction for GeneMark_model.106823_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 10555, rend_intergenic: 1863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 10917
-exon list size: 70


building trellis

1.4    
2.8    
4.2    
5.6    
6.9    
8.3    
9.7    
11.1    
12.5    
13.9    
15.3    
16.7    
18.1    
19.4    
20.8    
22.2    
23.6    
25.0    
26.4    
27.8    
29.2    
30.6    
31.9    
33.3    
34.7    
36.1    
37.5    
38.9    
40.3    
41.7    
43.1    
44.4    
45.8    
47.2    
48.6    
50.0    
51.4    
52.8    
54.2    
55.6    
56.9    
58.3    
59.7    
61.1    
62.5    
63.9    
65.3    
66.7    
68.1    
69.4    
70.8    
72.2    
73.6    
75.0    
76.4    
77.8    
79.2    
80.6    
81.9    
83.3    
84.7    
86.1    
87.5    
88.9    
90.3    
91.7    
93.1    
94.4    
95.8    
97.2    
98.6    
-found 3 predictions from path traversal
Error with prediction: snap lend_intergenic: 10555, rend_intergenic: 1863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 0 predictions persist after filtering for low support