-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_11/scaffold_11_15500726-15699195

-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 Augustus_model.g18799.t1
Valid prediction for GlimmerHMM_glimmerT_28387-T1
Valid prediction for Augustus_model.g18793.t1
Valid prediction for snap_scaffold_11-snap.3178-T1
Valid prediction for GlimmerHMM_glimmerT_28389-T1
Valid prediction for GlimmerHMM_glimmerT_28382-T1
Valid prediction for snap_scaffold_11-snap.3176-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for Augustus_model.g18817.t1
Valid prediction for CodingQuarry_transcript_8322-T1
Valid prediction for pasa_asmbl_6119.p1
Valid prediction for pasa_asmbl_6122.p1
Valid prediction for HiQ_model.g18805.t1
Valid prediction for snap_scaffold_11-snap.3156-T1
Valid prediction for Augustus_model.g18795.t1
Valid prediction for GlimmerHMM_glimmerT_28386-T1
Valid prediction for snap_scaffold_11-snap.3165-T1
Valid prediction for Augustus_model.g18806.t1
Valid prediction for snap_scaffold_11-snap.3152-T1
Valid prediction for snap_scaffold_11-snap.3153-T1
Valid prediction for snap_scaffold_11-snap.3143-T1
Valid prediction for snap_scaffold_11-snap.3164-T1
Valid prediction for GlimmerHMM_glimmerT_28402-T1
Valid prediction for Augustus_model.g18794.t1
Valid prediction for snap_scaffold_11-snap.3154-T1
Valid prediction for snap_scaffold_11-snap.3141-T1
Couldn't classify 191952, 192028
Sorry, prediction pasa_asmbl_6123.p1 fails validation.
(GCG)	 AG	191952-192028	GT	AGG
(AGG)	 AG	192270-192431	GT	AGG
(GGA)	 AG	192809-192950	GT	AGG
(GCT)	 AG	193127-193347	GT	AGG
(GAA)	 AG	193549-193700	GT	AGG
(GTC)	 AG	194038-194156	CT	AGC
-recovered pasa_asmbl_6123.p1, terminal, 194038, 194156
-recovered pasa_asmbl_6123.p1, internal, 191952, 192028
-recovered pasa_asmbl_6123.p1, internal, 192270, 192431
-recovered pasa_asmbl_6123.p1, internal, 192809, 192950
-recovered pasa_asmbl_6123.p1, internal, 193127, 193347
-recovered pasa_asmbl_6123.p1, internal, 193549, 193700
Valid prediction for Augustus_model.g18796.t1
Valid prediction for GlimmerHMM_glimmerT_28393-T1
Valid prediction for Augustus_model.g18797.t1
Valid prediction for GlimmerHMM_glimmerT_28385-T1
Couldn't classify 135511, 136297
Sorry, prediction pasa_asmbl_6120.p1 fails validation.
(CAG)	 AC	135511-136297	GT	AGG
(ACC)	 AG	136427-136596	GT	CGG
(ATT)	 AG	136721-137041	AA	GAA
-recovered pasa_asmbl_6120.p1, terminal, 136721, 137041
-recovered pasa_asmbl_6120.p1, internal, 136427, 136596
Valid prediction for CodingQuarry_transcript_8320-T1
Valid prediction for GlimmerHMM_glimmerT_28388-T1
Valid prediction for snap_scaffold_11-snap.3163-T1
Valid prediction for GlimmerHMM_glimmerT_28381-T1
Valid prediction for GlimmerHMM_glimmerT_28377-T1
Couldn't classify 190212, 190280
Couldn't classify 191378, 191536
Sorry, prediction pasa_asmbl_6260.p1 fails validation.
(GAC)	 AG	190212-190280	GT	AGG
(ACT)	 AG	190510-190635	GT	TGG
(ACC)	 AG	191378-191536	AA	ACA
-recovered pasa_asmbl_6260.p1, internal, 190212, 190280
-recovered pasa_asmbl_6260.p1, internal, 190510, 190635
Valid prediction for snap_scaffold_11-snap.3149-T1
Valid prediction for snap_scaffold_11-snap.3171-T1
Valid prediction for Augustus_model.g18818.t1
Valid prediction for snap_scaffold_11-snap.3162-T1
Valid prediction for Augustus_model.g18798.t1
Valid prediction for GlimmerHMM_glimmerT_28398-T1
Valid prediction for GlimmerHMM_glimmerT_28376-T1
Valid prediction for GlimmerHMM_glimmerT_28383-T1
Valid prediction for Augustus_model.g18800.t1
Valid prediction for GlimmerHMM_glimmerT_28384-T1
Valid prediction for Augustus_model.g18812.t1
Valid prediction for HiQ_model.g18807.t1
Couldn't classify 78664, 78742
Sorry, prediction pasa_asmbl_6305.p1 fails validation.
(ATG)	 TC	76880-77055	GT	AGG
(GAA)	 AG	77596-77667	GT	TGG
(CAG)	 AG	78664-78742	GG	CAG
-recovered pasa_asmbl_6305.p1, initial, 76880, 77055
-recovered pasa_asmbl_6305.p1, internal, 77596, 77667
Valid prediction for Augustus_model.g18801.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 snap_scaffold_11-snap.3142-T1
Valid prediction for HiQ_model.g18816.t1
Valid prediction for snap_scaffold_11-snap.3175-T1
Valid prediction for snap_scaffold_11-snap.3145-T1
Valid prediction for snap_scaffold_11-snap.3167-T1
Valid prediction for snap_scaffold_11-snap.3148-T1
Valid prediction for pasa_asmbl_7203.p1
Valid prediction for CodingQuarry_transcript_8324-T1
Valid prediction for GlimmerHMM_glimmerT_28380-T1
Valid prediction for Augustus_model.g18803.t1
Valid prediction for GlimmerHMM_glimmerT_28392-T1
Valid prediction for snap_scaffold_11-snap.3170-T1
Valid prediction for snap_scaffold_11-snap.3169-T1
Valid prediction for Augustus_model.g18808.t1
Valid prediction for snap_scaffold_11-snap.3155-T1
Valid prediction for Augustus_model.g18814.t1
Valid prediction for snap_scaffold_11-snap.3150-T1
Valid prediction for snap_scaffold_11-snap.3158-T1
Valid prediction for Augustus_model.g18811.t1
Valid prediction for snap_scaffold_11-snap.3151-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for HiQ_model.g18810.t1
Valid prediction for snap_scaffold_11-snap.3161-T1
Valid prediction for GlimmerHMM_glimmerT_28390-T1
Valid prediction for GlimmerHMM_glimmerT_28401-T1
Valid prediction for GlimmerHMM_glimmerT_28378-T1
Valid prediction for Augustus_model.g18802.t1
Valid prediction for GlimmerHMM_glimmerT_28394-T1
Valid prediction for GlimmerHMM_glimmerT_28391-T1
Valid prediction for pasa_asmbl_7211.p1
Valid prediction for snap_scaffold_11-snap.3168-T1
Valid prediction for snap_scaffold_11-snap.3177-T1
Valid prediction for snap_scaffold_11-snap.3147-T1
Valid prediction for GlimmerHMM_glimmerT_28399-T1
Valid prediction for Augustus_model.g18804.t1
Valid prediction for pasa_asmbl_7208.p1
Valid prediction for snap_scaffold_11-snap.3173-T1
Valid prediction for snap_scaffold_11-snap.3166-T1
Valid prediction for GlimmerHMM_glimmerT_28379-T1
Couldn't classify 49477, 49503
Sorry, prediction pasa_asmbl_7293.p1 fails validation.
(AGG)	 CG	49477-49503	GT	CCG
(AGG)	 AG	50128-50943	AC	AGA
-recovered pasa_asmbl_7293.p1, terminal, 50128, 50943
Valid prediction for snap_scaffold_11-snap.3157-T1
Valid prediction for snap_scaffold_11-snap.3146-T1
Valid prediction for Augustus_model.g18809.t1
Valid prediction for GlimmerHMM_glimmerT_28397-T1
Valid prediction for HiQ_model.g18813.t1
Valid prediction for CodingQuarry_transcript_8325-T1
Valid prediction for snap_scaffold_11-snap.3144-T1
Valid prediction for snap_scaffold_11-snap.3159-T1
Valid prediction for snap_scaffold_11-snap.3172-T1
Valid prediction for GlimmerHMM_glimmerT_28400-T1
Couldn't classify 47682, 47757
Sorry, prediction pasa_asmbl_7196.p1 fails validation.
(TCT)	 AG	47682-47757	GT	AGG
(TGT)	 AG	47863-47966	GT	AGG
(GGT)	 AG	48125-48434	GT	AGG
(CAC)	 AG	48590-48732	GT	AGG
(GCC)	 AG	48863-48931	AT	AAA
-recovered pasa_asmbl_7196.p1, terminal, 48863, 48931
-recovered pasa_asmbl_7196.p1, internal, 47682, 47757
-recovered pasa_asmbl_7196.p1, internal, 47863, 47966
-recovered pasa_asmbl_7196.p1, internal, 48125, 48434
-recovered pasa_asmbl_7196.p1, internal, 48590, 48732
Valid prediction for snap_scaffold_11-snap.3174-T1
Valid prediction for GlimmerHMM_glimmerT_28396-T1
Valid prediction for GlimmerHMM_glimmerT_28395-T1
Valid prediction for Augustus_model.g18815.t1
Valid prediction for snap_scaffold_11-snap.3160-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 8688, rend_intergenic: 7777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54858, rend_intergenic: 34242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57208, rend_intergenic: 56202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72025, rend_intergenic: 60025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74915, rend_intergenic: 72840  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84567, rend_intergenic: 82186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108649, rend_intergenic: 85911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128348, rend_intergenic: 125647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194156, rend_intergenic: 190571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 198470
-exon list size: 410


building trellis

0.2    
0.5    
0.7    
1.0    
1.2    
1.5    
1.7    
1.9    
2.2    
2.4    
2.7    
2.9    
3.2    
3.4    
3.6    
3.9    
4.1    
4.4    
4.6    
4.9    
5.1    
5.3    
5.6    
5.8    
6.1    
6.3    
6.6    
6.8    
7.0    
7.3    
7.5    
7.8    
8.0    
8.3    
8.5    
8.7    
9.0    
9.2    
9.5    
9.7    
10.0    
10.2    
10.4    
10.7    
10.9    
11.2    
11.4    
11.7    
11.9    
12.1    
12.4    
12.6    
12.9    
13.1    
13.3    
13.6    
13.8    
14.1    
14.3    
14.6    
14.8    
15.0    
15.3    
15.5    
15.8    
16.0    
16.3    
16.5    
16.7    
17.0    
17.2    
17.5    
17.7    
18.0    
18.2    
18.4    
18.7    
18.9    
19.2    
19.4    
19.7    
19.9    
20.1    
20.4    
20.6    
20.9    
21.1    
21.4    
21.6    
21.8    
22.1    
22.3    
22.6    
22.8    
23.1    
23.3    
23.5    
23.8    
24.0    
24.3    
24.5    
24.8    
25.0    
25.2    
25.5    
25.7    
26.0    
26.2    
26.5    
26.7    
26.9    
27.2    
27.4    
27.7    
27.9    
28.2    
28.4    
28.6    
28.9    
29.1    
29.4    
29.6    
29.9    
30.1    
30.3    
30.6    
30.8    
31.1    
31.3    
31.6    
31.8    
32.0    
32.3    
32.5    
32.8    
33.0    
33.3    
33.5    
33.7    
34.0    
34.2    
34.5    
34.7    
35.0    
35.2    
35.4    
35.7    
35.9    
36.2    
36.4    
36.7    
36.9    
37.1    
37.4    
37.6    
37.9    
38.1    
38.3    
38.6    
38.8    
39.1    
39.3    
39.6    
39.8    
40.0    
40.3    
40.5    
40.8    
41.0    
41.3    
41.5    
41.7    
42.0    
42.2    
42.5    
42.7    
43.0    
43.2    
43.4    
43.7    
43.9    
44.2    
44.4    
44.7    
44.9    
45.1    
45.4    
45.6    
45.9    
46.1    
46.4    
46.6    
46.8    
47.1    
47.3    
47.6    
47.8    
48.1    
48.3    
48.5    
48.8    
49.0    
49.3    
49.5    
49.8    
50.0    
50.2    
50.5    
50.7    
51.0    
51.2    
51.5    
51.7    
51.9    
52.2    
52.4    
52.7    
52.9    
53.2    
53.4    
53.6    
53.9    
54.1    
54.4    
54.6    
54.9    
55.1    
55.3    
55.6    
55.8    
56.1    
56.3    
56.6    
56.8    
57.0    
57.3    
57.5    
57.8    
58.0    
58.3    
58.5    
58.7    
59.0    
59.2    
59.5    
59.7    
60.0    
60.2    
60.4    
60.7    
60.9    
61.2    
61.4    
61.7    
61.9    
62.1    
62.4    
62.6    
62.9    
63.1    
63.3    
63.6    
63.8    
64.1    
64.3    
64.6    
64.8    
65.0    
65.3    
65.5    
65.8    
66.0    
66.3    
66.5    
66.7    
67.0    
67.2    
67.5    
67.7    
68.0    
68.2    
68.4    
68.7    
68.9    
69.2    
69.4    
69.7    
69.9    
70.1    
70.4    
70.6    
70.9    
71.1    
71.4    
71.6    
71.8    
72.1    
72.3    
72.6    
72.8    
73.1    
73.3    
73.5    
73.8    
74.0    
74.3    
74.5    
74.8    
75.0    
75.2    
75.5    
75.7    
76.0    
76.2    
76.5    
76.7    
76.9    
77.2    
77.4    
77.7    
77.9    
78.2    
78.4    
78.6    
78.9    
79.1    
79.4    
79.6    
79.9    
80.1    
80.3    
80.6    
80.8    
81.1    
81.3    
81.6    
81.8    
82.0    
82.3    
82.5    
82.8    
83.0    
83.3    
83.5    
83.7    
84.0    
84.2    
84.5    
84.7    
85.0    
85.2    
85.4    
85.7    
85.9    
86.2    
86.4    
86.7    
86.9    
87.1    
87.4    
87.6    
87.9    
88.1    
88.3    
88.6    
88.8    
89.1    
89.3    
89.6    
89.8    
90.0    
90.3    
90.5    
90.8    
91.0    
91.3    
91.5    
91.7    
92.0    
92.2    
92.5    
92.7    
93.0    
93.2    
93.4    
93.7    
93.9    
94.2    
94.4    
94.7    
94.9    
95.1    
95.4    
95.6    
95.9    
96.1    
96.4    
96.6    
96.8    
97.1    
97.3    
97.6    
97.8    
98.1    
98.3    
98.5    
98.8    
99.0    
99.3    
99.5    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 8688, rend_intergenic: 7777  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54858, rend_intergenic: 34242  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57208, rend_intergenic: 56202  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72025, rend_intergenic: 60025  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74915, rend_intergenic: 72840  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 84567, rend_intergenic: 82186  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 108649, rend_intergenic: 85911  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 128348, rend_intergenic: 125647  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194156, rend_intergenic: 190571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support