-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_17/scaffold_17_3581105-3782415

-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 snap_scaffold_17-snap.759-T1
Valid prediction for Augustus_model.g26690.t1
Valid prediction for Augustus_model.g26687.t1
Valid prediction for snap_scaffold_17-snap.783-T1
Valid prediction for GlimmerHMM_glimmerT_40086-T1
Valid prediction for snap_scaffold_17-snap.789-T1
Valid prediction for GlimmerHMM_glimmerT_40076-T1
Valid prediction for GlimmerHMM_glimmerT_40072-T1
Couldn't classify 75752, 75856
Couldn't classify 76529, 76636
Sorry, prediction CodingQuarry_transcript_21932-T1 fails validation.
(ATG)	 TC	74683-74711	GT	AGG
(GGA)	 AG	75163-75397	GT	AGG
(GTA)	 AG	75502-75570	GT	GGG
(GAG)	 AG	75752-75856	TC	TAT
(CAG)	 TT	76529-76636	GT	AGG
(AAG)	 AG	77020-77133	GT	AGG
(CAG)	 AG	79413-79544	AT	GAA
-recovered CodingQuarry_transcript_21932-T1, initial, 74683, 74711
-recovered CodingQuarry_transcript_21932-T1, terminal, 79413, 79544
-recovered CodingQuarry_transcript_21932-T1, internal, 75163, 75397
-recovered CodingQuarry_transcript_21932-T1, internal, 75502, 75570
-recovered CodingQuarry_transcript_21932-T1, internal, 77020, 77133
Valid prediction for GlimmerHMM_glimmerT_40080-T1
Couldn't classify 98443, 98658
Sorry, prediction pasa_asmbl_18732.p1 fails validation.
(ATG)	 CG	97482-97775	GT	AGG
(GTT)	 AG	98443-98658	GT	CGG
-recovered pasa_asmbl_18732.p1, initial, 97482, 97775
-recovered pasa_asmbl_18732.p1, internal, 98443, 98658
Valid prediction for snap_scaffold_17-snap.788-T1
Valid prediction for snap_scaffold_17-snap.776-T1
Valid prediction for Augustus_model.g26683.t1
Valid prediction for GlimmerHMM_glimmerT_40079-T1
Valid prediction for snap_scaffold_17-snap.758-T1
Valid prediction for snap_scaffold_17-snap.780-T1
Valid prediction for GlimmerHMM_glimmerT_40073-T1
Valid prediction for Augustus_model.g26692.t1
Couldn't classify 75752, 75856
Couldn't classify 76529, 76636
Sorry, prediction CodingQuarry_transcript_21933-T1 fails validation.
(ATG)	 TC	74683-74711	GT	AGG
(GGA)	 AG	75163-75397	GT	AGG
(GTA)	 AG	75502-75570	GT	GGG
(GAG)	 AG	75752-75856	TC	TAT
(CAG)	 TT	76529-76636	GT	AGG
(AAG)	 AG	77020-77133	GT	AGG
(GTG)	 AG	78414-78533	GT	AGG
(CAG)	 AG	79416-79544	AT	GAA
-recovered CodingQuarry_transcript_21933-T1, initial, 74683, 74711
-recovered CodingQuarry_transcript_21933-T1, terminal, 79416, 79544
-recovered CodingQuarry_transcript_21933-T1, internal, 75163, 75397
-recovered CodingQuarry_transcript_21933-T1, internal, 75502, 75570
-recovered CodingQuarry_transcript_21933-T1, internal, 77020, 77133
-recovered CodingQuarry_transcript_21933-T1, internal, 78414, 78533
Couldn't classify 102141, 102470
Sorry, prediction pasa_asmbl_18733.p1 fails validation.
(GCG)	 CA	102141-102470	TA	GAT
Valid prediction for Augustus_model.g26685.t1
Valid prediction for GlimmerHMM_glimmerT_40067-T1
Valid prediction for snap_scaffold_17-snap.763-T1
Valid prediction for GlimmerHMM_glimmerT_40081-T1
Valid prediction for snap_scaffold_17-snap.764-T1
Couldn't classify 79413, 79439
Sorry, prediction pasa_asmbl_18730.p1 fails validation.
(ATG)	 CA	76559-76636	GT	AGG
(AAG)	 AG	77020-77133	GT	AGG
(GTG)	 AG	78414-78533	GT	AGG
(CAG)	 AG	79413-79439	AG	GGA
-recovered pasa_asmbl_18730.p1, initial, 76559, 76636
-recovered pasa_asmbl_18730.p1, internal, 77020, 77133
-recovered pasa_asmbl_18730.p1, internal, 78414, 78533
Valid prediction for snap_scaffold_17-snap.761-T1
Valid prediction for snap_scaffold_17-snap.793-T1
Valid prediction for snap_scaffold_17-snap.766-T1
Valid prediction for snap_scaffold_17-snap.775-T1
Valid prediction for GlimmerHMM_glimmerT_40084-T1
Valid prediction for snap_scaffold_17-snap.781-T1
Valid prediction for snap_scaffold_17-snap.794-T1
Valid prediction for GlimmerHMM_glimmerT_40068-T1
Valid prediction for GlimmerHMM_glimmerT_40077-T1
Valid prediction for Augustus_model.g26691.t1
Valid prediction for snap_scaffold_17-snap.769-T1
Valid prediction for snap_scaffold_17-snap.790-T1
Valid prediction for GlimmerHMM_glimmerT_40069-T1
Valid prediction for Augustus_model.g26682.t1
Valid prediction for snap_scaffold_17-snap.772-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_17-snap.771-T1
Valid prediction for Augustus_model.g26688.t1
Valid prediction for Augustus_model.g26686.t1
Valid prediction for snap_scaffold_17-snap.768-T1
Valid prediction for GlimmerHMM_glimmerT_40070-T1
Valid prediction for GlimmerHMM_glimmerT_40066-T1
Valid prediction for GlimmerHMM_glimmerT_40064-T1
Valid prediction for GlimmerHMM_glimmerT_40085-T1
Valid prediction for HiQ_model.g26689.t1
Valid prediction for GlimmerHMM_glimmerT_40062-T1
Valid prediction for GlimmerHMM_glimmerT_40071-T1
Valid prediction for snap_scaffold_17-snap.773-T1
Valid prediction for snap_scaffold_17-snap.767-T1
Valid prediction for GlimmerHMM_glimmerT_40061-T1
Valid prediction for snap_scaffold_17-snap.782-T1
Valid prediction for snap_scaffold_17-snap.770-T1
Valid prediction for GlimmerHMM_glimmerT_40083-T1
Valid prediction for GlimmerHMM_glimmerT_40065-T1
Valid prediction for GlimmerHMM_glimmerT_40078-T1
Valid prediction for pasa_asmbl_17823.p1
Valid prediction for GlimmerHMM_glimmerT_40075-T1
Valid prediction for CodingQuarry_transcript_21935-T1
Valid prediction for snap_scaffold_17-snap.765-T1
Valid prediction for snap_scaffold_17-snap.762-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for snap_scaffold_17-snap.792-T1
Valid prediction for snap_scaffold_17-snap.787-T1
Valid prediction for GlimmerHMM_glimmerT_40074-T1
Valid prediction for snap_scaffold_17-snap.785-T1
Valid prediction for snap_scaffold_17-snap.791-T1
Valid prediction for snap_scaffold_17-snap.760-T1
Valid prediction for GlimmerHMM_glimmerT_40082-T1
Valid prediction for Augustus_model.g26681.t1
Valid prediction for Augustus_model.g26684.t1
Valid prediction for snap_scaffold_17-snap.757-T1
Valid prediction for snap_scaffold_17-snap.779-T1
Valid prediction for snap_scaffold_17-snap.784-T1
Valid prediction for snap_scaffold_17-snap.778-T1
Valid prediction for snap_scaffold_17-snap.786-T1
Valid prediction for GlimmerHMM_glimmerT_40063-T1
Valid prediction for snap_scaffold_17-snap.774-T1
Valid prediction for snap_scaffold_17-snap.777-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14538, rend_intergenic: 12367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46544, rend_intergenic: 45532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79544, rend_intergenic: 78756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102470, rend_intergenic: 100804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136578, rend_intergenic: 123962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145979, rend_intergenic: 139026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160974, rend_intergenic: 150986  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177608, rend_intergenic: 163915  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 201311
-exon list size: 264


building trellis

0.4    
0.8    
1.1    
1.5    
1.9    
2.3    
2.6    
3.0    
3.4    
3.8    
4.1    
4.5    
4.9    
5.3    
5.6    
6.0    
6.4    
6.8    
7.1    
7.5    
7.9    
8.3    
8.6    
9.0    
9.4    
9.8    
10.2    
10.5    
10.9    
11.3    
11.7    
12.0    
12.4    
12.8    
13.2    
13.5    
13.9    
14.3    
14.7    
15.0    
15.4    
15.8    
16.2    
16.5    
16.9    
17.3    
17.7    
18.0    
18.4    
18.8    
19.2    
19.5    
19.9    
20.3    
20.7    
21.1    
21.4    
21.8    
22.2    
22.6    
22.9    
23.3    
23.7    
24.1    
24.4    
24.8    
25.2    
25.6    
25.9    
26.3    
26.7    
27.1    
27.4    
27.8    
28.2    
28.6    
28.9    
29.3    
29.7    
30.1    
30.5    
30.8    
31.2    
31.6    
32.0    
32.3    
32.7    
33.1    
33.5    
33.8    
34.2    
34.6    
35.0    
35.3    
35.7    
36.1    
36.5    
36.8    
37.2    
37.6    
38.0    
38.3    
38.7    
39.1    
39.5    
39.8    
40.2    
40.6    
41.0    
41.4    
41.7    
42.1    
42.5    
42.9    
43.2    
43.6    
44.0    
44.4    
44.7    
45.1    
45.5    
45.9    
46.2    
46.6    
47.0    
47.4    
47.7    
48.1    
48.5    
48.9    
49.2    
49.6    
50.0    
50.4    
50.8    
51.1    
51.5    
51.9    
52.3    
52.6    
53.0    
53.4    
53.8    
54.1    
54.5    
54.9    
55.3    
55.6    
56.0    
56.4    
56.8    
57.1    
57.5    
57.9    
58.3    
58.6    
59.0    
59.4    
59.8    
60.2    
60.5    
60.9    
61.3    
61.7    
62.0    
62.4    
62.8    
63.2    
63.5    
63.9    
64.3    
64.7    
65.0    
65.4    
65.8    
66.2    
66.5    
66.9    
67.3    
67.7    
68.0    
68.4    
68.8    
69.2    
69.5    
69.9    
70.3    
70.7    
71.1    
71.4    
71.8    
72.2    
72.6    
72.9    
73.3    
73.7    
74.1    
74.4    
74.8    
75.2    
75.6    
75.9    
76.3    
76.7    
77.1    
77.4    
77.8    
78.2    
78.6    
78.9    
79.3    
79.7    
80.1    
80.5    
80.8    
81.2    
81.6    
82.0    
82.3    
82.7    
83.1    
83.5    
83.8    
84.2    
84.6    
85.0    
85.3    
85.7    
86.1    
86.5    
86.8    
87.2    
87.6    
88.0    
88.3    
88.7    
89.1    
89.5    
89.8    
90.2    
90.6    
91.0    
91.4    
91.7    
92.1    
92.5    
92.9    
93.2    
93.6    
94.0    
94.4    
94.7    
95.1    
95.5    
95.9    
96.2    
96.6    
97.0    
97.4    
97.7    
98.1    
98.5    
98.9    
99.2    
99.6    
-found 24 predictions from path traversal
Error with prediction: snap lend_intergenic: 14538, rend_intergenic: 12367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 46544, rend_intergenic: 45532  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79544, rend_intergenic: 78756  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102470, rend_intergenic: 100804  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 136578, rend_intergenic: 123962  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 145979, rend_intergenic: 139026  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 160974, rend_intergenic: 150986  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 177608, rend_intergenic: 163915  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