-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_26/scaffold_26_4153786-4285512

-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_55486-T1
Valid prediction for snap_scaffold_26-snap.894-T1
Valid prediction for GlimmerHMM_glimmerT_55481-T1
Valid prediction for snap_scaffold_26-snap.900-T1
Valid prediction for snap_scaffold_26-snap.920-T1
Valid prediction for GlimmerHMM_glimmerT_55469-T1
Valid prediction for snap_scaffold_26-snap.913-T1
Valid prediction for HiQ_model.g36760.t1
Valid prediction for GlimmerHMM_glimmerT_55485-T1
Valid prediction for GlimmerHMM_glimmerT_55490-T1
Valid prediction for snap_scaffold_26-snap.924-T1
Valid prediction for GlimmerHMM_glimmerT_55493-T1
Valid prediction for snap_scaffold_26-snap.908-T1
Valid prediction for snap_scaffold_26-snap.930-T1
Valid prediction for GlimmerHMM_glimmerT_55480-T1
Valid prediction for snap_scaffold_26-snap.911-T1
Valid prediction for snap_scaffold_26-snap.917-T1
Valid prediction for snap_scaffold_26-snap.904-T1
Valid prediction for snap_scaffold_26-snap.921-T1
Valid prediction for GlimmerHMM_glimmerT_55489-T1
Valid prediction for Augustus_model.g36744.t1
Valid prediction for snap_scaffold_26-snap.906-T1
Valid prediction for Augustus_model.g36749.t1
Valid prediction for GlimmerHMM_glimmerT_55472-T1
Valid prediction for CodingQuarry_transcript_40312-T1
Valid prediction for snap_scaffold_26-snap.895-T1
Valid prediction for snap_scaffold_26-snap.912-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g36753.t1
Valid prediction for Augustus_model.g36752.t1
Valid prediction for GlimmerHMM_glimmerT_55497-T1
Valid prediction for Augustus_model.g36754.t1
Valid prediction for GlimmerHMM_glimmerT_55487-T1
Valid prediction for Augustus_model.g36751.t1
Valid prediction for snap_scaffold_26-snap.927-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_55482-T1
Valid prediction for GlimmerHMM_glimmerT_55473-T1
Valid prediction for snap_scaffold_26-snap.910-T1
Valid prediction for snap_scaffold_26-snap.902-T1
Valid prediction for snap_scaffold_26-snap.923-T1
Valid prediction for snap_scaffold_26-snap.893-T1
Couldn't classify 1639, 1800
Sorry, prediction pasa_asmbl_34877.p1 fails validation.
(ATC)	 TC	1639-1800	GT	AGG
(ATT)	 AG	1896-1962	GT	CGG
(CCC)	 AG	2072-2382	GT	AGG
(TGG)	 AG	2508-2635	GT	AGG
(GGT)	 AG	5330-5448	GT	AGG
(ATC)	 AG	5544-5650	GG	GAG
-recovered pasa_asmbl_34877.p1, terminal, 5544, 5650
-recovered pasa_asmbl_34877.p1, internal, 1896, 1962
-recovered pasa_asmbl_34877.p1, internal, 2072, 2382
-recovered pasa_asmbl_34877.p1, internal, 2508, 2635
-recovered pasa_asmbl_34877.p1, internal, 5330, 5448
Valid prediction for CodingQuarry_transcript_40313-T1
Valid prediction for GlimmerHMM_glimmerT_55483-T1
Valid prediction for snap_scaffold_26-snap.926-T1
Valid prediction for GlimmerHMM_glimmerT_55491-T1
Valid prediction for pasa_asmbl_34880.p1

-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 GlimmerHMM_glimmerT_55495-T1
Valid prediction for GlimmerHMM_glimmerT_55476-T1
Valid prediction for GlimmerHMM_glimmerT_55471-T1
Valid prediction for GlimmerHMM_glimmerT_55474-T1
Valid prediction for snap_scaffold_26-snap.929-T1
Valid prediction for snap_scaffold_26-snap.919-T1
Valid prediction for GlimmerHMM_glimmerT_55478-T1
Valid prediction for GlimmerHMM_glimmerT_55494-T1
Couldn't classify 12063, 12069
Sorry, prediction pasa_asmbl_35538.p1 fails validation.
(ATG)	 AA	10254-10331	GT	AGG
(GTG)	 AG	10552-10699	GT	CGG
(CTG)	 AG	10835-10982	GT	GGG
(TGA)	 AG	11711-11863	GT	AGG
(GTG)	 AG	12063-12069	GA	GGG
-recovered pasa_asmbl_35538.p1, initial, 10254, 10331
-recovered pasa_asmbl_35538.p1, internal, 10552, 10699
-recovered pasa_asmbl_35538.p1, internal, 10835, 10982
-recovered pasa_asmbl_35538.p1, internal, 11711, 11863
Valid prediction for GlimmerHMM_glimmerT_55475-T1
Valid prediction for Augustus_model.g36755.t1
Valid prediction for snap_scaffold_26-snap.901-T1
Valid prediction for Augustus_model.g36748.t1
Valid prediction for snap_scaffold_26-snap.915-T1
Valid prediction for GlimmerHMM_glimmerT_55498-T1
Couldn't classify 12908, 12928
Sorry, prediction pasa_asmbl_35537.p1 fails validation.
(GTG)	 GA	12908-12928	GT	AGG
(TTT)	 AG	13369-13488	GT	AGG
(GAG)	 AG	13840-13993	GT	AGG
(ACA)	 AG	16504-16655	CC	GAC
-recovered pasa_asmbl_35537.p1, terminal, 16504, 16655
-recovered pasa_asmbl_35537.p1, internal, 13369, 13488
-recovered pasa_asmbl_35537.p1, internal, 13840, 13993
Valid prediction for Augustus_model.g36745.t1
Valid prediction for snap_scaffold_26-snap.909-T1
Valid prediction for GlimmerHMM_glimmerT_55484-T1
Valid prediction for snap_scaffold_26-snap.898-T1
Valid prediction for GlimmerHMM_glimmerT_55470-T1
Valid prediction for Augustus_model.g36759.t1
Valid prediction for Augustus_model.g36761.t1
Valid prediction for GlimmerHMM_glimmerT_55492-T1
Valid prediction for GlimmerHMM_glimmerT_55488-T1
Valid prediction for snap_scaffold_26-snap.905-T1
Valid prediction for snap_scaffold_26-snap.918-T1
Valid prediction for snap_scaffold_26-snap.931-T1
Valid prediction for GlimmerHMM_glimmerT_55479-T1
Valid prediction for snap_scaffold_26-snap.903-T1
Valid prediction for snap_scaffold_26-snap.914-T1
Valid prediction for Augustus_model.g36756.t1
Valid prediction for snap_scaffold_26-snap.916-T1
Valid prediction for Augustus_model.g36758.t1
Valid prediction for GlimmerHMM_glimmerT_55477-T1
Valid prediction for snap_scaffold_26-snap.925-T1
Valid prediction for snap_scaffold_26-snap.907-T1
Valid prediction for GlimmerHMM_glimmerT_55496-T1
Valid prediction for Augustus_model.g36746.t1
Valid prediction for snap_scaffold_26-snap.899-T1
Valid prediction for Augustus_model.g36750.t1
Valid prediction for snap_scaffold_26-snap.922-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.928-T1
Valid prediction for Augustus_model.g36747.t1
Valid prediction for snap_scaffold_26-snap.897-T1
Valid prediction for snap_scaffold_26-snap.896-T1
Valid prediction for Augustus_model.g36757.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 25886, rend_intergenic: 24204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27378, rend_intergenic: 25889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34512, rend_intergenic: 27462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36421, rend_intergenic: 34895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37112, rend_intergenic: 36455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38803, rend_intergenic: 37237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40542, rend_intergenic: 40349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47310, rend_intergenic: 41117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49682, rend_intergenic: 47560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64770, rend_intergenic: 50047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86438, rend_intergenic: 83486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98770, rend_intergenic: 91928  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105058, rend_intergenic: 99996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117894, rend_intergenic: 115073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121474, rend_intergenic: 117936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 131727
-exon list size: 326


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.7    
3.0    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
7.9    
8.2    
8.5    
8.8    
9.1    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.3    
14.6    
14.9    
15.2    
15.5    
15.9    
16.2    
16.5    
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17.1    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.0    
21.3    
21.6    
22.0    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.8    
27.1    
27.4    
27.7    
28.0    
28.4    
28.7    
29.0    
29.3    
29.6    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.9    
33.2    
33.5    
33.8    
34.1    
34.5    
34.8    
35.1    
35.4    
35.7    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.5    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.4    
45.7    
46.0    
46.3    
46.6    
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    
53.4    
53.7    
54.0    
54.3    
54.6    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
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    
65.9    
66.2    
66.5    
66.8    
67.1    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.4    
70.7    
71.0    
71.3    
71.6    
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    
78.4    
78.7    
79.0    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
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    
90.9    
91.2    
91.5    
91.8    
92.1    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
97.0    
97.3    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 25886, rend_intergenic: 24204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 27378, rend_intergenic: 25889  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34512, rend_intergenic: 27462  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36421, rend_intergenic: 34895  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 37112, rend_intergenic: 36455  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38803, rend_intergenic: 37237  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 40542, rend_intergenic: 40349  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47310, rend_intergenic: 41117  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 49682, rend_intergenic: 47560  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64770, rend_intergenic: 50047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 86438, rend_intergenic: 83486  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98770, rend_intergenic: 91928  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105058, rend_intergenic: 99996  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117894, rend_intergenic: 115073  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121474, rend_intergenic: 117936  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

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