-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_15/scaffold_15_14573671-14777943

-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 GlimmerHMM_glimmerT_37407-T1
Valid prediction for pasa_asmbl_15700.p1
Valid prediction for CodingQuarry_transcript_18237-T1
Valid prediction for snap_scaffold_15-snap.2923-T1
Valid prediction for snap_scaffold_15-snap.2922-T1
Valid prediction for pasa_asmbl_15696.p1
Valid prediction for snap_scaffold_15-snap.2927-T1
Valid prediction for CodingQuarry_transcript_18234-T1
Valid prediction for GlimmerHMM_glimmerT_37414-T1
Valid prediction for snap_scaffold_15-snap.2908-T1
Valid prediction for snap_scaffold_15-snap.2945-T1
Valid prediction for Augustus_model.g24918.t1
Valid prediction for snap_scaffold_15-snap.2914-T1
Valid prediction for snap_scaffold_15-snap.2919-T1
Valid prediction for HiQ_model.g24929.t1
Valid prediction for Augustus_model.g24930.t1
Valid prediction for snap_scaffold_15-snap.2911-T1
Valid prediction for Augustus_model.g24937.t1
Valid prediction for GlimmerHMM_glimmerT_37419-T1
Valid prediction for Augustus_model.g24933.t1
Valid prediction for CodingQuarry_transcript_18236-T1
Valid prediction for snap_scaffold_15-snap.2932-T1
Valid prediction for snap_scaffold_15-snap.2926-T1
Valid prediction for snap_scaffold_15-snap.2942-T1
Valid prediction for GlimmerHMM_glimmerT_37401-T1
Valid prediction for GlimmerHMM_glimmerT_37399-T1
Couldn't classify 110222, 110310
Couldn't classify 116706, 116825
Sorry, prediction pasa_asmbl_15869.p1 fails validation.
(CAT)	 AG	110222-110310	GT	CAG
(ATA)	 AG	111121-111177	GT	GGG
(GTT)	 AG	111950-112024	GT	ATG
(CTA)	 AG	114221-114458	GT	AGG
(GTG)	 AG	114807-114950	GT	AGG
(ATC)	 AG	116706-116825	TC	AGT
-recovered pasa_asmbl_15869.p1, internal, 110222, 110310
-recovered pasa_asmbl_15869.p1, internal, 111121, 111177
-recovered pasa_asmbl_15869.p1, internal, 111950, 112024
-recovered pasa_asmbl_15869.p1, internal, 114221, 114458
-recovered pasa_asmbl_15869.p1, internal, 114807, 114950
Valid prediction for Augustus_model.g24920.t1
Valid prediction for snap_scaffold_15-snap.2924-T1
Valid prediction for pasa_asmbl_15688.p1
Valid prediction for snap_scaffold_15-snap.2912-T1
Valid prediction for Augustus_model.g24919.t1
Valid prediction for snap_scaffold_15-snap.2903-T1
Valid prediction for GlimmerHMM_glimmerT_37413-T1
Valid prediction for snap_scaffold_15-snap.2939-T1
Valid prediction for pasa_asmbl_15691.p1
Valid prediction for Augustus_model.g24931.t1
Valid prediction for GlimmerHMM_glimmerT_37411-T1
Valid prediction for snap_scaffold_15-snap.2938-T1
Valid prediction for HiQ_model.g24926.t1
Valid prediction for snap_scaffold_15-snap.2928-T1
Valid prediction for snap_scaffold_15-snap.2904-T1
Valid prediction for snap_scaffold_15-snap.2940-T1
Valid prediction for HiQ_model.g24923.t1
Valid prediction for GlimmerHMM_glimmerT_37412-T1
Valid prediction for GlimmerHMM_glimmerT_37400-T1
Valid prediction for GlimmerHMM_glimmerT_37404-T1
Valid prediction for snap_scaffold_15-snap.2915-T1
Valid prediction for snap_scaffold_15-snap.2925-T1
Valid prediction for GlimmerHMM_glimmerT_37398-T1
Valid prediction for snap_scaffold_15-snap.2905-T1
Valid prediction for snap_scaffold_15-snap.2930-T1
Valid prediction for snap_scaffold_15-snap.2906-T1
Valid prediction for CodingQuarry_transcript_18232-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_15-snap.2916-T1
Valid prediction for GlimmerHMM_glimmerT_37418-T1
Valid prediction for snap_scaffold_15-snap.2937-T1
Valid prediction for CodingQuarry_transcript_18230-T1
Valid prediction for GlimmerHMM_glimmerT_37415-T1
Valid prediction for Augustus_model.g24921.t1
Valid prediction for GlimmerHMM_glimmerT_37402-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_15-snap.2941-T1
Valid prediction for GlimmerHMM_glimmerT_37406-T1
Valid prediction for Augustus_model.g24935.t1
Valid prediction for HiQ_model.g24932.t1
Valid prediction for GlimmerHMM_glimmerT_37409-T1
Valid prediction for snap_scaffold_15-snap.2943-T1
Valid prediction for HiQ_model.g24922.t1
Valid prediction for Augustus_model.g24927.t1
Valid prediction for snap_scaffold_15-snap.2907-T1
Valid prediction for snap_scaffold_15-snap.2933-T1
Valid prediction for Augustus_model.g24934.t1
Valid prediction for snap_scaffold_15-snap.2934-T1
Valid prediction for Augustus_model.g24939.t1
Valid prediction for HiQ_model.g24928.t1
Valid prediction for snap_scaffold_15-snap.2913-T1
Valid prediction for GlimmerHMM_glimmerT_37416-T1
Valid prediction for CodingQuarry_transcript_18240-T1
Valid prediction for snap_scaffold_15-snap.2944-T1
Valid prediction for snap_scaffold_15-snap.2910-T1
Valid prediction for GlimmerHMM_glimmerT_37420-T1
Valid prediction for snap_scaffold_15-snap.2917-T1
Valid prediction for CodingQuarry_transcript_18228-T1
Valid prediction for snap_scaffold_15-snap.2909-T1
Couldn't classify 20526, 20546
Couldn't classify 29121, 29265
Sorry, prediction pasa_asmbl_14745.p1 fails validation.
(GAG)	 TG	20526-20546	GT	AGG
(GAC)	 AG	20667-20754	GT	CGG
(GGT)	 AG	22439-22523	GT	AAG
(AAC)	 AG	24546-24649	GT	CGG
(AGA)	 AG	25012-25138	GT	AAG
(GAA)	 AG	27581-27673	GT	GAG
(TAT)	 AG	27974-28057	GT	AAG
(GGT)	 AG	29121-29265	GT	AGG
-recovered pasa_asmbl_14745.p1, internal, 20667, 20754
-recovered pasa_asmbl_14745.p1, internal, 22439, 22523
-recovered pasa_asmbl_14745.p1, internal, 24546, 24649
-recovered pasa_asmbl_14745.p1, internal, 25012, 25138
-recovered pasa_asmbl_14745.p1, internal, 27581, 27673
-recovered pasa_asmbl_14745.p1, internal, 27974, 28057
-recovered pasa_asmbl_14745.p1, internal, 29121, 29265
Valid prediction for pasa_asmbl_14739.p1
Valid prediction for snap_scaffold_15-snap.2935-T1
Valid prediction for snap_scaffold_15-snap.2902-T1
Valid prediction for CodingQuarry_transcript_18233-T1
Valid prediction for Augustus_model.g24938.t1
Valid prediction for CodingQuarry_transcript_18238-T1
Valid prediction for pasa_asmbl_14732.p1
Valid prediction for pasa_asmbl_14741.p1
Valid prediction for GlimmerHMM_glimmerT_37410-T1
Valid prediction for GlimmerHMM_glimmerT_37417-T1
Valid prediction for snap_scaffold_15-snap.2920-T1
Valid prediction for snap_scaffold_15-snap.2918-T1
Valid prediction for GlimmerHMM_glimmerT_37405-T1
Valid prediction for GlimmerHMM_glimmerT_37403-T1
Valid prediction for CodingQuarry_transcript_18229-T1
Valid prediction for GlimmerHMM_glimmerT_37397-T1
Valid prediction for snap_scaffold_15-snap.2921-T1
Valid prediction for snap_scaffold_15-snap.2936-T1
Valid prediction for CodingQuarry_transcript_18231-T1
Valid prediction for snap_scaffold_15-snap.2929-T1
Valid prediction for Augustus_model.g24940.t1
Valid prediction for Augustus_model.g24936.t1
Valid prediction for Augustus_model.g24924.t1
Valid prediction for Augustus_model.g24925.t1
Valid prediction for GlimmerHMM_glimmerT_37408-T1
Valid prediction for snap_scaffold_15-snap.2931-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 21502, rend_intergenic: 7184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39176, rend_intergenic: 34156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48659, rend_intergenic: 40571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51895, rend_intergenic: 49060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65008, rend_intergenic: 62775  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116831, rend_intergenic: 108402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172363, rend_intergenic: 170439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179652, rend_intergenic: 174600  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195291, rend_intergenic: 189250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 204273
-exon list size: 350


building trellis

0.3    
0.6    
0.9    
1.1    
1.4    
1.7    
2.0    
2.3    
2.6    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.5    
4.8    
5.1    
5.4    
5.7    
6.0    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.2    
8.5    
8.8    
9.1    
9.4    
9.7    
9.9    
10.2    
10.5    
10.8    
11.1    
11.4    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.6    
13.9    
14.2    
14.5    
14.8    
15.1    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.0    
17.3    
17.6    
17.9    
18.2    
18.5    
18.8    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.7    
21.0    
21.3    
21.6    
21.9    
22.2    
22.4    
22.7    
23.0    
23.3    
23.6    
23.9    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.1    
26.4    
26.7    
27.0    
27.3    
27.6    
27.8    
28.1    
28.4    
28.7    
29.0    
29.3    
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    
33.2    
33.5    
33.8    
34.1    
34.4    
34.7    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.6    
38.9    
39.2    
39.5    
39.8    
40.1    
40.3    
40.6    
40.9    
41.2    
41.5    
41.8    
42.0    
42.3    
42.6    
42.9    
43.2    
43.5    
43.8    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.7    
46.0    
46.3    
46.6    
46.9    
47.2    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.8    
53.1    
53.4    
53.7    
54.0    
54.3    
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    
58.2    
58.5    
58.8    
59.1    
59.4    
59.7    
59.9    
60.2    
60.5    
60.8    
61.1    
61.4    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.3    
65.6    
65.9    
66.2    
66.5    
66.8    
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    
70.7    
71.0    
71.3    
71.6    
71.9    
72.2    
72.4    
72.7    
73.0    
73.3    
73.6    
73.9    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.1    
76.4    
76.7    
77.0    
77.3    
77.6    
77.8    
78.1    
78.4    
78.7    
79.0    
79.3    
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    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
84.9    
85.2    
85.5    
85.8    
86.1    
86.4    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.6    
88.9    
89.2    
89.5    
89.8    
90.1    
90.3    
90.6    
90.9    
91.2    
91.5    
91.8    
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    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.4    
97.7    
98.0    
98.3    
98.6    
98.9    
99.1    
99.4    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 21502, rend_intergenic: 7184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39176, rend_intergenic: 34156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 48659, rend_intergenic: 40571  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51895, rend_intergenic: 49060  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 65008, rend_intergenic: 62775  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 116831, rend_intergenic: 108402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 172363, rend_intergenic: 170439  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 179652, rend_intergenic: 174600  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 195291, rend_intergenic: 189250  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 26 predictions persist after filtering for low support