-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_22/scaffold_22_2845989-3064051

-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 pasa_asmbl_29244.p1
Valid prediction for snap_scaffold_22-snap.506-T1
Valid prediction for GeneMark_model.87069_t
Valid prediction for snap_scaffold_22-snap.499-T1
Valid prediction for GeneMark_model.87074_t
Valid prediction for GlimmerHMM_glimmerT_50317-T1
Valid prediction for HiQ_model.g33751.t1
Valid prediction for snap_scaffold_22-snap.493-T1
Couldn't classify 187766, 187882
Sorry, prediction pasa_asmbl_29243.p1 fails validation.
(GTG)	 CA	187766-187882	GT	AGG
(AAT)	 AG	189119-189243	GT	AAG
(AGA)	 AG	191576-191764	GT	AAG
(CCT)	 AG	192526-192619	GT	AGG
(GCA)	 AG	193437-193553	GT	AGG
(ACT)	 AG	193797-193967	GT	GGG
(GTG)	 AG	194578-194674	GT	AGG
(GTT)	 AG	194835-194980	GT	AGG
(TGT)	 AG	195109-195247	GT	AGG
(CGT)	 AG	195572-195690	GT	AGG
(CTC)	 AG	195882-196061	GT	TGG
(CAC)	 AG	196175-196366	GT	TGG
(AAC)	 AG	196442-196531	GT	AGG
(CTC)	 AG	196957-197097	CT	AAC
-recovered pasa_asmbl_29243.p1, terminal, 196957, 197097
-recovered pasa_asmbl_29243.p1, internal, 189119, 189243
-recovered pasa_asmbl_29243.p1, internal, 191576, 191764
-recovered pasa_asmbl_29243.p1, internal, 192526, 192619
-recovered pasa_asmbl_29243.p1, internal, 193437, 193553
-recovered pasa_asmbl_29243.p1, internal, 193797, 193967
-recovered pasa_asmbl_29243.p1, internal, 194578, 194674
-recovered pasa_asmbl_29243.p1, internal, 194835, 194980
-recovered pasa_asmbl_29243.p1, internal, 195109, 195247
-recovered pasa_asmbl_29243.p1, internal, 195572, 195690
-recovered pasa_asmbl_29243.p1, internal, 195882, 196061
-recovered pasa_asmbl_29243.p1, internal, 196175, 196366
-recovered pasa_asmbl_29243.p1, internal, 196442, 196531
Valid prediction for GeneMark_model.87079_t
Valid prediction for GlimmerHMM_glimmerT_50311-T1
Valid prediction for GeneMark_model.87066_t
Valid prediction for snap_scaffold_22-snap.509-T1
Valid prediction for snap_scaffold_22-snap.511-T1
Valid prediction for snap_scaffold_22-snap.491-T1
Valid prediction for GeneMark_model.87064_t
Valid prediction for snap_scaffold_22-snap.508-T1
Valid prediction for snap_scaffold_22-snap.489-T1
Valid prediction for snap_scaffold_22-snap.501-T1
Valid prediction for GlimmerHMM_glimmerT_50324-T1
Valid prediction for GlimmerHMM_glimmerT_50307-T1
Valid prediction for GeneMark_model.87078_t
Valid prediction for snap_scaffold_22-snap.505-T1
Valid prediction for GeneMark_model.87082_t
Valid prediction for GeneMark_model.87071_t
Valid prediction for GlimmerHMM_glimmerT_50321-T1
Valid prediction for GlimmerHMM_glimmerT_50312-T1
Valid prediction for GlimmerHMM_glimmerT_50325-T1
Valid prediction for Augustus_model.g33750.t1
Valid prediction for Augustus_model.g33748.t1
Valid prediction for GeneMark_model.87060_t
Valid prediction for GlimmerHMM_glimmerT_50309-T1
Valid prediction for GeneMark_model.87065_t
Valid prediction for GlimmerHMM_glimmerT_50310-T1
Valid prediction for GeneMark_model.87085_t

-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.g33747.t1
Valid prediction for GeneMark_model.87077_t
Valid prediction for GlimmerHMM_glimmerT_50315-T1
Valid prediction for Augustus_model.g33741.t1
Valid prediction for snap_scaffold_22-snap.507-T1
Valid prediction for snap_scaffold_22-snap.494-T1
Valid prediction for GeneMark_model.87080_t
Valid prediction for snap_scaffold_22-snap.503-T1
Valid prediction for Augustus_model.g33744.t1
Valid prediction for GeneMark_model.87063_t
Valid prediction for snap_scaffold_22-snap.495-T1
Couldn't classify 48529, 48598
Sorry, prediction pasa_asmbl_29929.p1 fails validation.
(GCA)	 GA	48529-48598	GT	GCG
(GGC)	 AG	50249-54288	TT	GAT
-recovered pasa_asmbl_29929.p1, terminal, 50249, 54288
Valid prediction for GlimmerHMM_glimmerT_50323-T1
Valid prediction for snap_scaffold_22-snap.498-T1
Valid prediction for pasa_asmbl_29924.p1
Valid prediction for Augustus_model.g33749.t1
Valid prediction for snap_scaffold_22-snap.492-T1
Valid prediction for GlimmerHMM_glimmerT_50313-T1
Valid prediction for GeneMark_model.87068_t
Valid prediction for GlimmerHMM_glimmerT_50322-T1
Valid prediction for Augustus_model.g33745.t1
Valid prediction for GeneMark_model.87083_t
Valid prediction for snap_scaffold_22-snap.502-T1
Valid prediction for snap_scaffold_22-snap.500-T1
Valid prediction for GeneMark_model.87084_t
Valid prediction for GeneMark_model.87073_t
Valid prediction for GlimmerHMM_glimmerT_50319-T1
Valid prediction for HiQ_model.g33743.t1
Valid prediction for GeneMark_model.87081_t
Valid prediction for snap_scaffold_22-snap.488-T1
Valid prediction for Augustus_model.g33753.t1
Valid prediction for CodingQuarry_transcript_34060-T1
Valid prediction for GeneMark_model.87067_t
Valid prediction for snap_scaffold_22-snap.504-T1
Valid prediction for GeneMark_model.87062_t
Couldn't classify 109979, 110049
Sorry, prediction pasa_asmbl_29920.p1 fails validation.
(GAC)	 CA	109979-110049	GT	AGG
(GAA)	 AG	110238-111048	TG	GAT
-recovered pasa_asmbl_29920.p1, terminal, 110238, 111048
Valid prediction for snap_scaffold_22-snap.512-T1
Valid prediction for snap_scaffold_22-snap.490-T1
Valid prediction for GeneMark_model.87061_t
Valid prediction for GeneMark_model.87075_t
Valid prediction for GeneMark_model.87070_t
Valid prediction for GlimmerHMM_glimmerT_50316-T1
Valid prediction for CodingQuarry_transcript_34058-T1
Valid prediction for snap_scaffold_22-snap.496-T1
Valid prediction for GlimmerHMM_glimmerT_50326-T1
Valid prediction for Augustus_model.g33746.t1
Valid prediction for GlimmerHMM_glimmerT_50308-T1
Valid prediction for snap_scaffold_22-snap.510-T1
Valid prediction for Augustus_model.g33740.t1
Valid prediction for snap_scaffold_22-snap.497-T1
Valid prediction for GeneMark_model.87072_t
Valid prediction for GlimmerHMM_glimmerT_50320-T1
Valid prediction for GlimmerHMM_glimmerT_50314-T1
Valid prediction for GlimmerHMM_glimmerT_50306-T1
Valid prediction for Augustus_model.g33752.t1
Valid prediction for Augustus_model.g33742.t1
Couldn't classify 91590, 91673
Couldn't classify 104637, 104703
Sorry, prediction pasa_asmbl_29921.p1 fails validation.
(CAG)	 GC	91590-91673	GT	CGG
(AGT)	 AG	91774-91920	GT	GGG
(CTC)	 AG	94447-94596	GC	AGG
(ATT)	 AG	96672-96840	GT	AGG
(GGC)	 AG	98533-98685	GT	AGG
(TAA)	 AG	100263-100406	GT	CGG
(ACC)	 AG	102967-103759	GT	AGG
(GGA)	 AG	104637-104703	GG	ACG
-recovered pasa_asmbl_29921.p1, internal, 91774, 91920
-recovered pasa_asmbl_29921.p1, internal, 94447, 94596
-recovered pasa_asmbl_29921.p1, internal, 96672, 96840
-recovered pasa_asmbl_29921.p1, internal, 98533, 98685
-recovered pasa_asmbl_29921.p1, internal, 100263, 100406
-recovered pasa_asmbl_29921.p1, internal, 102967, 103759
Valid prediction for GlimmerHMM_glimmerT_50318-T1
Valid prediction for CodingQuarry_transcript_34059-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 213669, rend_intergenic: 208730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 218063
-exon list size: 334


building trellis

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2.4    
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5.7    
6.0    
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7.1    
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8.0    
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8.9    
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10.7    
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11.6    
11.9    
12.2    
12.5    
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14.6    
14.9    
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17.0    
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17.6    
17.9    
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19.0    
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19.6    
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24.4    
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25.6    
25.9    
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26.5    
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27.1    
27.4    
27.7    
28.0    
28.3    
28.6    
28.9    
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29.5    
29.8    
30.1    
30.4    
30.7    
31.0    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.2    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
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38.7    
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41.4    
41.7    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
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44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.0    
47.3    
47.6    
47.9    
48.2    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.8    
52.1    
52.4    
52.7    
53.0    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.2    
56.5    
56.8    
57.1    
57.4    
57.7    
58.0    
58.3    
58.6    
58.9    
59.2    
59.5    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.3    
64.6    
64.9    
65.2    
65.5    
65.8    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.0    
69.3    
69.6    
69.9    
70.2    
70.5    
70.8    
71.1    
71.4    
71.7    
72.0    
72.3    
72.6    
72.9    
73.2    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.2    
81.5    
81.8    
82.1    
82.4    
82.7    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.7    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.0    
94.3    
94.6    
94.9    
95.2    
95.5    
95.8    
96.1    
96.4    
96.7    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 14 predictions from path traversal
Error with prediction: snap lend_intergenic: 213669, rend_intergenic: 208730  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 11 predictions persist after filtering for low support