-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_8/scaffold_8_220705-478487

-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_8-snap.73-T1
Valid prediction for Augustus_model.g13134.t1
Valid prediction for snap_scaffold_8-snap.72-T1
Valid prediction for GlimmerHMM_glimmerT_19530-T1
Valid prediction for GeneMark_model.33139_t
Valid prediction for Augustus_model.g13136.t1
Valid prediction for GeneMark_model.33131_t
Valid prediction for GlimmerHMM_glimmerT_19547-T1
Valid prediction for GeneMark_model.33121_t
Valid prediction for GeneMark_model.33140_t
Valid prediction for snap_scaffold_8-snap.65-T1
Valid prediction for GeneMark_model.33124_t
Valid prediction for GeneMark_model.33110_t
Valid prediction for snap_scaffold_8-snap.87-T1
Valid prediction for GeneMark_model.33103_t
Valid prediction for GeneMark_model.33105_t
Valid prediction for snap_scaffold_8-snap.78-T1
Valid prediction for snap_scaffold_8-snap.55-T1
Valid prediction for snap_scaffold_8-snap.76-T1
Valid prediction for GeneMark_model.33112_t
Valid prediction for GeneMark_model.33148_t
Valid prediction for GlimmerHMM_glimmerT_19536-T1
Valid prediction for GlimmerHMM_glimmerT_19541-T1
Valid prediction for snap_scaffold_8-snap.62-T1
Valid prediction for snap_scaffold_8-snap.69-T1
Valid prediction for GlimmerHMM_glimmerT_19552-T1
Valid prediction for Augustus_model.g13132.t1
Valid prediction for snap_scaffold_8-snap.90-T1
Valid prediction for GeneMark_model.33147_t
Valid prediction for GlimmerHMM_glimmerT_19532-T1
Valid prediction for Augustus_model.g13130.t1
Valid prediction for Augustus_model.g13135.t1
Valid prediction for GeneMark_model.33114_t
Valid prediction for GlimmerHMM_glimmerT_19540-T1
Valid prediction for snap_scaffold_8-snap.77-T1
Valid prediction for GlimmerHMM_glimmerT_19534-T1
Valid prediction for GeneMark_model.33135_t
Valid prediction for GeneMark_model.33107_t
Valid prediction for GlimmerHMM_glimmerT_19549-T1
Valid prediction for GeneMark_model.33129_t
Valid prediction for GeneMark_model.33101_t
Valid prediction for GlimmerHMM_glimmerT_19542-T1
Valid prediction for GlimmerHMM_glimmerT_19548-T1
Valid prediction for Augustus_model.g13133.t1
Valid prediction for snap_scaffold_8-snap.81-T1
Valid prediction for snap_scaffold_8-snap.59-T1
Valid prediction for snap_scaffold_8-snap.80-T1
Valid prediction for GlimmerHMM_glimmerT_19546-T1
Couldn't classify 70973, 70990
Sorry, prediction pasa_asmbl_51641.p2 fails validation.
(GTC)	 CT	70973-70990	GT	AGG
(CTG)	 AG	71414-71614	GT	TGG
(ATG)	 AG	72259-72381	GG	GAG
-recovered pasa_asmbl_51641.p2, terminal, 72259, 72381
-recovered pasa_asmbl_51641.p2, internal, 71414, 71614
Valid prediction for snap_scaffold_8-snap.82-T1
Valid prediction for GlimmerHMM_glimmerT_19537-T1
Valid prediction for GeneMark_model.33151_t
Valid prediction for GeneMark_model.33128_t
Valid prediction for GeneMark_model.33133_t
Valid prediction for snap_scaffold_8-snap.57-T1
Valid prediction for Augustus_model.g13129.t1
Valid prediction for snap_scaffold_8-snap.83-T1
Valid prediction for snap_scaffold_8-snap.47-T1
Valid prediction for snap_scaffold_8-snap.86-T1
Couldn't classify 118055, 118076
Couldn't classify 124232, 124354
Sorry, prediction pasa_asmbl_51646.p1 fails validation.
(GCA)	 AC	118055-118076	GT	AGG
(ATC)	 AG	118295-118418	GT	AGG
(GTC)	 AG	118504-118586	GT	CAG
(GTC)	 AG	118722-118771	GT	CGG
(AGG)	 AG	119096-119201	GT	TGG
(ACC)	 AG	119573-119714	GT	AAG
(GCT)	 AG	120636-120780	GT	AGG
(GAC)	 AG	122406-122471	GT	AGG
(GTG)	 AG	124232-124354	TG	GGT
-recovered pasa_asmbl_51646.p1, internal, 118295, 118418
-recovered pasa_asmbl_51646.p1, internal, 118504, 118586
-recovered pasa_asmbl_51646.p1, internal, 118722, 118771
-recovered pasa_asmbl_51646.p1, internal, 119096, 119201
-recovered pasa_asmbl_51646.p1, internal, 119573, 119714
-recovered pasa_asmbl_51646.p1, internal, 120636, 120780
-recovered pasa_asmbl_51646.p1, internal, 122406, 122471
Valid prediction for GeneMark_model.33097_t
Valid prediction for snap_scaffold_8-snap.75-T1
Valid prediction for snap_scaffold_8-snap.61-T1
Valid prediction for GlimmerHMM_glimmerT_19544-T1
Valid prediction for Augustus_model.g13137.t1
Valid prediction for GeneMark_model.33113_t
Valid prediction for GeneMark_model.33142_t
Valid prediction for snap_scaffold_8-snap.51-T1
Valid prediction for snap_scaffold_8-snap.52-T1
Valid prediction for GlimmerHMM_glimmerT_19533-T1
Valid prediction for GlimmerHMM_glimmerT_19556-T1
Valid prediction for GeneMark_model.33116_t
Couldn't classify 114370, 114530
Sorry, prediction pasa_asmbl_51643.p1 fails validation.
(GAT)	 GA	114370-114530	GT	AGG
(GAT)	 AG	114966-115155	GT	TGG
(GTA)	 AG	115524-115631	GT	CAG
(GAG)	 AG	115818-115955	GT	AGG
(GGT)	 AG	116286-116347	GT	GCG
(TGT)	 AG	117006-117222	GG	GAG
-recovered pasa_asmbl_51643.p1, terminal, 117006, 117222
-recovered pasa_asmbl_51643.p1, internal, 114966, 115155
-recovered pasa_asmbl_51643.p1, internal, 115524, 115631
-recovered pasa_asmbl_51643.p1, internal, 115818, 115955
-recovered pasa_asmbl_51643.p1, internal, 116286, 116347
Valid prediction for snap_scaffold_8-snap.58-T1
Valid prediction for GeneMark_model.33137_t
Valid prediction for GlimmerHMM_glimmerT_19554-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.33146_t
Valid prediction for GeneMark_model.33102_t
Valid prediction for snap_scaffold_8-snap.50-T1
Valid prediction for snap_scaffold_8-snap.64-T1
Valid prediction for GeneMark_model.33150_t
Valid prediction for snap_scaffold_8-snap.88-T1
Valid prediction for snap_scaffold_8-snap.53-T1
Valid prediction for GlimmerHMM_glimmerT_19531-T1
Valid prediction for GeneMark_model.33109_t
Valid prediction for snap_scaffold_8-snap.89-T1
Valid prediction for snap_scaffold_8-snap.85-T1
Valid prediction for snap_scaffold_8-snap.84-T1
Valid prediction for GeneMark_model.33152_t
Valid prediction for GlimmerHMM_glimmerT_19545-T1
Valid prediction for snap_scaffold_8-snap.67-T1
Valid prediction for GeneMark_model.33106_t
Valid prediction for GeneMark_model.33143_t
Valid prediction for GlimmerHMM_glimmerT_19557-T1
Valid prediction for GeneMark_model.33117_t
Valid prediction for GlimmerHMM_glimmerT_19535-T1
Valid prediction for snap_scaffold_8-snap.71-T1
Valid prediction for GlimmerHMM_glimmerT_19529-T1
Valid prediction for snap_scaffold_8-snap.54-T1
Valid prediction for GeneMark_model.33132_t
Valid prediction for GlimmerHMM_glimmerT_19555-T1
Valid prediction for GeneMark_model.33115_t
Valid prediction for snap_scaffold_8-snap.92-T1
Valid prediction for GeneMark_model.33099_t
Valid prediction for snap_scaffold_8-snap.63-T1
Valid prediction for GlimmerHMM_glimmerT_19551-T1
Valid prediction for GeneMark_model.33149_t
Valid prediction for GeneMark_model.33111_t
Valid prediction for GeneMark_model.33120_t
Valid prediction for snap_scaffold_8-snap.60-T1
Valid prediction for GlimmerHMM_glimmerT_19558-T1
Valid prediction for GeneMark_model.33127_t
Valid prediction for Augustus_model.g13138.t1
Valid prediction for GeneMark_model.33095_t
Valid prediction for snap_scaffold_8-snap.56-T1
Valid prediction for GeneMark_model.33119_t
Valid prediction for GlimmerHMM_glimmerT_19538-T1
Valid prediction for snap_scaffold_8-snap.74-T1
Valid prediction for GeneMark_model.33134_t
Valid prediction for GeneMark_model.33130_t
Valid prediction for GeneMark_model.33118_t
Valid prediction for GeneMark_model.33098_t
Valid prediction for GlimmerHMM_glimmerT_19543-T1
Valid prediction for GeneMark_model.33122_t
Valid prediction for snap_scaffold_8-snap.48-T1
Valid prediction for GeneMark_model.33141_t
Valid prediction for GeneMark_model.33123_t
Valid prediction for GlimmerHMM_glimmerT_19550-T1
Valid prediction for GeneMark_model.33126_t
Couldn't classify 180423, 180567
Couldn't classify 182364, 182524
Sorry, prediction pasa_asmbl_52688.p1 fails validation.
(GAG)	 GA	180423-180567	GT	CGG
(TGT)	 AG	180742-180840	GT	AGG
(CGT)	 AG	182364-182524	AG	ACA
-recovered pasa_asmbl_52688.p1, internal, 180742, 180840
Valid prediction for snap_scaffold_8-snap.66-T1
Valid prediction for GeneMark_model.33104_t
Valid prediction for snap_scaffold_8-snap.70-T1
Valid prediction for GeneMark_model.33108_t
Valid prediction for snap_scaffold_8-snap.68-T1
Valid prediction for snap_scaffold_8-snap.91-T1
Valid prediction for snap_scaffold_8-snap.49-T1
Valid prediction for GeneMark_model.33100_t
Valid prediction for GeneMark_model.33153_t
Valid prediction for snap_scaffold_8-snap.79-T1
Valid prediction for GeneMark_model.33125_t
Valid prediction for GeneMark_model.33096_t
Valid prediction for Augustus_model.g13139.t1
Valid prediction for GlimmerHMM_glimmerT_19553-T1
Valid prediction for GeneMark_model.33145_t
Valid prediction for GlimmerHMM_glimmerT_19539-T1
Valid prediction for Augustus_model.g13131.t1
Valid prediction for GeneMark_model.33136_t
Valid prediction for GeneMark_model.33138_t
Valid prediction for GlimmerHMM_glimmerT_19559-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 26956, rend_intergenic: 4310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74018, rend_intergenic: 45827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84215, rend_intergenic: 81424  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100409, rend_intergenic: 84222  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108522, rend_intergenic: 103128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127966, rend_intergenic: 119075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130455, rend_intergenic: 128909  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138352, rend_intergenic: 130792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148848, rend_intergenic: 139925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154168, rend_intergenic: 148905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156968, rend_intergenic: 154217  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160662, rend_intergenic: 159120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168967, rend_intergenic: 160706  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191227, rend_intergenic: 180445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219936, rend_intergenic: 213888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 232495, rend_intergenic: 220358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 242819, rend_intergenic: 238819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 250335, rend_intergenic: 244107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 257783
-exon list size: 878


building trellis

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67.7    
67.8    
68.0    
68.1    
68.2    
68.3    
68.4    
68.5    
68.6    
68.8    
68.9    
69.0    
69.1    
69.2    
69.3    
69.4    
69.5    
69.7    
69.8    
69.9    
70.0    
70.1    
70.2    
70.3    
70.5    
70.6    
70.7    
70.8    
70.9    
71.0    
71.1    
71.2    
71.4    
71.5    
71.6    
71.7    
71.8    
71.9    
72.0    
72.2    
72.3    
72.4    
72.5    
72.6    
72.7    
72.8    
73.0    
73.1    
73.2    
73.3    
73.4    
73.5    
73.6    
73.8    
73.9    
74.0    
74.1    
74.2    
74.3    
74.4    
74.5    
74.7    
74.8    
74.9    
75.0    
75.1    
75.2    
75.3    
75.5    
75.6    
75.7    
75.8    
75.9    
76.0    
76.1    
76.2    
76.4    
76.5    
76.6    
76.7    
76.8    
76.9    
77.0    
77.2    
77.3    
77.4    
77.5    
77.6    
77.7    
77.8    
78.0    
78.1    
78.2    
78.3    
78.4    
78.5    
78.6    
78.8    
78.9    
79.0    
79.1    
79.2    
79.3    
79.4    
79.5    
79.7    
79.8    
79.9    
80.0    
80.1    
80.2    
80.3    
80.5    
80.6    
80.7    
80.8    
80.9    
81.0    
81.1    
81.2    
81.4    
81.5    
81.6    
81.7    
81.8    
81.9    
82.0    
82.2    
82.3    
82.4    
82.5    
82.6    
82.7    
82.8    
83.0    
83.1    
83.2    
83.3    
83.4    
83.5    
83.6    
83.8    
83.9    
84.0    
84.1    
84.2    
84.3    
84.4    
84.5    
84.7    
84.8    
84.9    
85.0    
85.1    
85.2    
85.3    
85.5    
85.6    
85.7    
85.8    
85.9    
86.0    
86.1    
86.2    
86.4    
86.5    
86.6    
86.7    
86.8    
86.9    
87.0    
87.2    
87.3    
87.4    
87.5    
87.6    
87.7    
87.8    
88.0    
88.1    
88.2    
88.3    
88.4    
88.5    
88.6    
88.8    
88.9    
89.0    
89.1    
89.2    
89.3    
89.4    
89.5    
89.7    
89.8    
89.9    
90.0    
90.1    
90.2    
90.3    
90.5    
90.6    
90.7    
90.8    
90.9    
91.0    
91.1    
91.2    
91.4    
91.5    
91.6    
91.7    
91.8    
91.9    
92.0    
92.2    
92.3    
92.4    
92.5    
92.6    
92.7    
92.8    
93.0    
93.1    
93.2    
93.3    
93.4    
93.5    
93.6    
93.8    
93.9    
94.0    
94.1    
94.2    
94.3    
94.4    
94.5    
94.7    
94.8    
94.9    
95.0    
95.1    
95.2    
95.3    
95.5    
95.6    
95.7    
95.8    
95.9    
96.0    
96.1    
96.2    
96.4    
96.5    
96.6    
96.7    
96.8    
96.9    
97.0    
97.2    
97.3    
97.4    
97.5    
97.6    
97.7    
97.8    
98.0    
98.1    
98.2    
98.3    
98.4    
98.5    
98.6    
98.8    
98.9    
99.0    
99.1    
99.2    
99.3    
99.4    
99.5    
99.7    
99.8    
99.9    
-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 26956, rend_intergenic: 4310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74018, rend_intergenic: 45827  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84215, rend_intergenic: 81424  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 100409, rend_intergenic: 84222  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108522, rend_intergenic: 103128  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127966, rend_intergenic: 119075  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 130455, rend_intergenic: 128909  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138352, rend_intergenic: 130792  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148848, rend_intergenic: 139925  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 154168, rend_intergenic: 148905  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156968, rend_intergenic: 154217  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160662, rend_intergenic: 159120  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 168967, rend_intergenic: 160706  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 191227, rend_intergenic: 180445  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 219936, rend_intergenic: 213888  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 232495, rend_intergenic: 220358  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 242819, rend_intergenic: 238819  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 250335, rend_intergenic: 244107  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 16 predictions persist after filtering for low support

-building DP trellis

-building trellis in range 1 - 12390
-exon list size: 45


building trellis

2.1    
4.3    
6.4    
8.5    
10.6    
12.8    
14.9    
17.0    
19.1    
21.3    
23.4    
25.5    
27.7    
29.8    
31.9    
34.0    
36.2    
38.3    
40.4    
42.6    
44.7    
46.8    
48.9    
51.1    
53.2    
55.3    
57.4    
59.6    
61.7    
63.8    
66.0    
68.1    
70.2    
72.3    
74.5    
76.6    
78.7    
80.9    
83.0    
85.1    
87.2    
89.4    
91.5    
93.6    
95.7    
97.9    
-found 1 predictions from path traversal

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

-building DP trellis

-building trellis in range 246574 - 257783
-exon list size: 7


building trellis

11.1    
22.2    
33.3    
44.4    
55.6    
66.7    
77.8    
88.9    
-found 1 predictions from path traversal

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