-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_16691644-16880038

-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 HiQ_model.g12631.t1
Couldn't classify 122955, 123050
Sorry, prediction pasa_asmbl_50474.p2 fails validation.
(GGA)	 TT	122955-123050	GT	CTG
(AGC)	 AG	124020-124136	GT	AGG
(TGG)	 AG	124485-124556	GT	AGG
(CCC)	 AG	124682-124717	AG	AAA
-recovered pasa_asmbl_50474.p2, terminal, 124682, 124717
-recovered pasa_asmbl_50474.p2, internal, 124020, 124136
-recovered pasa_asmbl_50474.p2, internal, 124485, 124556
Valid prediction for snap_scaffold_7-snap.3170-T1
Valid prediction for GlimmerHMM_glimmerT_18771-T1
Valid prediction for snap_scaffold_7-snap.3158-T1
Valid prediction for snap_scaffold_7-snap.3185-T1
Valid prediction for GlimmerHMM_glimmerT_18781-T1
Valid prediction for snap_scaffold_7-snap.3168-T1
Valid prediction for GlimmerHMM_glimmerT_18773-T1
Valid prediction for snap_scaffold_7-snap.3167-T1
Valid prediction for GlimmerHMM_glimmerT_18762-T1
Valid prediction for pasa_asmbl_50475.p1
Valid prediction for snap_scaffold_7-snap.3172-T1
Valid prediction for Augustus_model.g12633.t1
Valid prediction for GlimmerHMM_glimmerT_18761-T1
Valid prediction for GlimmerHMM_glimmerT_18763-T1
Valid prediction for snap_scaffold_7-snap.3184-T1
Valid prediction for Augustus_model.g12626.t1
Valid prediction for snap_scaffold_7-snap.3175-T1
Valid prediction for snap_scaffold_7-snap.3181-T1
Valid prediction for snap_scaffold_7-snap.3166-T1
Valid prediction for CodingQuarry_transcript_57744-T1
Valid prediction for GlimmerHMM_glimmerT_18775-T1
Valid prediction for GlimmerHMM_glimmerT_18780-T1
Valid prediction for snap_scaffold_7-snap.3152-T1
Valid prediction for CodingQuarry_transcript_57740-T1
Valid prediction for GlimmerHMM_glimmerT_18783-T1
Valid prediction for GlimmerHMM_glimmerT_18777-T1
Valid prediction for Augustus_model.g12634.t1
Valid prediction for snap_scaffold_7-snap.3169-T1
Valid prediction for snap_scaffold_7-snap.3177-T1
Valid prediction for snap_scaffold_7-snap.3154-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g12625.t1
Valid prediction for GlimmerHMM_glimmerT_18766-T1
Valid prediction for snap_scaffold_7-snap.3174-T1
Valid prediction for snap_scaffold_7-snap.3164-T1
Valid prediction for Augustus_model.g12627.t1
Valid prediction for snap_scaffold_7-snap.3176-T1
Valid prediction for GlimmerHMM_glimmerT_18779-T1
Valid prediction for GlimmerHMM_glimmerT_18767-T1
Valid prediction for snap_scaffold_7-snap.3163-T1
Valid prediction for Augustus_model.g12624.t1
Valid prediction for snap_scaffold_7-snap.3179-T1
Valid prediction for snap_scaffold_7-snap.3155-T1
Valid prediction for snap_scaffold_7-snap.3160-T1
Couldn't classify 122047, 122096
Sorry, prediction pasa_asmbl_50473.p1 fails validation.
(ATG)	 AA	118964-119050	GT	AGG
(GGA)	 AG	119463-119521	GT	AAG
(ACT)	 AG	119692-119752	GC	AGG
(AGA)	 AG	120144-120200	GT	TGG
(GAG)	 AG	120367-120464	GT	AAG
(GCT)	 AG	121042-121138	GT	AGG
(CAT)	 AG	121228-121296	GT	AGG
(AGT)	 AG	121719-121869	GT	CGG
(GGA)	 AG	122047-122096	CT	TGC
-recovered pasa_asmbl_50473.p1, initial, 118964, 119050
-recovered pasa_asmbl_50473.p1, internal, 119463, 119521
-recovered pasa_asmbl_50473.p1, internal, 119692, 119752
-recovered pasa_asmbl_50473.p1, internal, 120144, 120200
-recovered pasa_asmbl_50473.p1, internal, 120367, 120464
-recovered pasa_asmbl_50473.p1, internal, 121042, 121138
-recovered pasa_asmbl_50473.p1, internal, 121228, 121296
-recovered pasa_asmbl_50473.p1, internal, 121719, 121869

-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_7-snap.3178-T1
Valid prediction for snap_scaffold_7-snap.3171-T1
Valid prediction for GlimmerHMM_glimmerT_18760-T1
Valid prediction for GlimmerHMM_glimmerT_18768-T1
Valid prediction for pasa_asmbl_51418.p1
Valid prediction for GlimmerHMM_glimmerT_18764-T1
Valid prediction for HiQ_model.g12628.t1
Valid prediction for GlimmerHMM_glimmerT_18770-T1
Valid prediction for GlimmerHMM_glimmerT_18765-T1
Valid prediction for GlimmerHMM_glimmerT_18772-T1
Valid prediction for snap_scaffold_7-snap.3165-T1
Valid prediction for snap_scaffold_7-snap.3151-T1
Valid prediction for GlimmerHMM_glimmerT_18778-T1
Valid prediction for GlimmerHMM_glimmerT_18776-T1
Valid prediction for snap_scaffold_7-snap.3156-T1
Valid prediction for snap_scaffold_7-snap.3161-T1
Valid prediction for pasa_asmbl_51417.p1
Valid prediction for pasa_asmbl_51420.p1
Valid prediction for snap_scaffold_7-snap.3162-T1
Valid prediction for snap_scaffold_7-snap.3159-T1
Valid prediction for Augustus_model.g12632.t1
Valid prediction for snap_scaffold_7-snap.3183-T1
Valid prediction for snap_scaffold_7-snap.3182-T1
Valid prediction for CodingQuarry_transcript_57743-T1
Valid prediction for snap_scaffold_7-snap.3173-T1
Valid prediction for Augustus_model.g12635.t1
Valid prediction for HiQ_model.g12630.t1
Valid prediction for snap_scaffold_7-snap.3153-T1
Valid prediction for GlimmerHMM_glimmerT_18782-T1
Valid prediction for HiQ_model.g12629.t1
Valid prediction for snap_scaffold_7-snap.3186-T1
Valid prediction for GlimmerHMM_glimmerT_18769-T1
Valid prediction for snap_scaffold_7-snap.3157-T1
Valid prediction for GlimmerHMM_glimmerT_18774-T1
Valid prediction for snap_scaffold_7-snap.3180-T1
Valid prediction for CodingQuarry_transcript_57741-T1
Valid prediction for snap_scaffold_7-snap.3150-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 13462, rend_intergenic: 11398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26528, rend_intergenic: 15942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36452, rend_intergenic: 29931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47790, rend_intergenic: 45392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56477, rend_intergenic: 47874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96933, rend_intergenic: 94714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105129, rend_intergenic: 97027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128129, rend_intergenic: 125575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131115, rend_intergenic: 129005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163949, rend_intergenic: 159933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172320, rend_intergenic: 165446  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 188395
-exon list size: 286


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.1    
2.4    
2.8    
3.1    
3.5    
3.8    
4.2    
4.5    
4.9    
5.2    
5.6    
5.9    
6.2    
6.6    
6.9    
7.3    
7.6    
8.0    
8.3    
8.7    
9.0    
9.4    
9.7    
10.1    
10.4    
10.8    
11.1    
11.5    
11.8    
12.2    
12.5    
12.8    
13.2    
13.5    
13.9    
14.2    
14.6    
14.9    
15.3    
15.6    
16.0    
16.3    
16.7    
17.0    
17.4    
17.7    
18.1    
18.4    
18.8    
19.1    
19.4    
19.8    
20.1    
20.5    
20.8    
21.2    
21.5    
21.9    
22.2    
22.6    
22.9    
23.3    
23.6    
24.0    
24.3    
24.7    
25.0    
25.3    
25.7    
26.0    
26.4    
26.7    
27.1    
27.4    
27.8    
28.1    
28.5    
28.8    
29.2    
29.5    
29.9    
30.2    
30.6    
30.9    
31.2    
31.6    
31.9    
32.3    
32.6    
33.0    
33.3    
33.7    
34.0    
34.4    
34.7    
35.1    
35.4    
35.8    
36.1    
36.5    
36.8    
37.2    
37.5    
37.8    
38.2    
38.5    
38.9    
39.2    
39.6    
39.9    
40.3    
40.6    
41.0    
41.3    
41.7    
42.0    
42.4    
42.7    
43.1    
43.4    
43.8    
44.1    
44.4    
44.8    
45.1    
45.5    
45.8    
46.2    
46.5    
46.9    
47.2    
47.6    
47.9    
48.3    
48.6    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.4    
51.7    
52.1    
52.4    
52.8    
53.1    
53.5    
53.8    
54.2    
54.5    
54.9    
55.2    
55.6    
55.9    
56.2    
56.6    
56.9    
57.3    
57.6    
58.0    
58.3    
58.7    
59.0    
59.4    
59.7    
60.1    
60.4    
60.8    
61.1    
61.5    
61.8    
62.2    
62.5    
62.8    
63.2    
63.5    
63.9    
64.2    
64.6    
64.9    
65.3    
65.6    
66.0    
66.3    
66.7    
67.0    
67.4    
67.7    
68.1    
68.4    
68.8    
69.1    
69.4    
69.8    
70.1    
70.5    
70.8    
71.2    
71.5    
71.9    
72.2    
72.6    
72.9    
73.3    
73.6    
74.0    
74.3    
74.7    
75.0    
75.3    
75.7    
76.0    
76.4    
76.7    
77.1    
77.4    
77.8    
78.1    
78.5    
78.8    
79.2    
79.5    
79.9    
80.2    
80.6    
80.9    
81.2    
81.6    
81.9    
82.3    
82.6    
83.0    
83.3    
83.7    
84.0    
84.4    
84.7    
85.1    
85.4    
85.8    
86.1    
86.5    
86.8    
87.2    
87.5    
87.8    
88.2    
88.5    
88.9    
89.2    
89.6    
89.9    
90.3    
90.6    
91.0    
91.3    
91.7    
92.0    
92.4    
92.7    
93.1    
93.4    
93.8    
94.1    
94.4    
94.8    
95.1    
95.5    
95.8    
96.2    
96.5    
96.9    
97.2    
97.6    
97.9    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 13462, rend_intergenic: 11398  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 26528, rend_intergenic: 15942  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36452, rend_intergenic: 29931  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47790, rend_intergenic: 45392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 56477, rend_intergenic: 47874  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 96933, rend_intergenic: 94714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105129, rend_intergenic: 97027  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128129, rend_intergenic: 125575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131115, rend_intergenic: 129005  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163949, rend_intergenic: 159933  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172320, rend_intergenic: 165446  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 20 predictions persist after filtering for low support