-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_6/scaffold_6_17474965-17608304

-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.g11012.t1
Valid prediction for GlimmerHMM_glimmerT_16432-T1
Valid prediction for CodingQuarry_transcript_55410-T1
Valid prediction for GlimmerHMM_glimmerT_16424-T1
Valid prediction for GlimmerHMM_glimmerT_16426-T1
Valid prediction for CodingQuarry_transcript_55409-T1
Valid prediction for GlimmerHMM_glimmerT_16441-T1
Valid prediction for snap_scaffold_6-snap.3707-T1
Valid prediction for snap_scaffold_6-snap.3724-T1
Valid prediction for snap_scaffold_6-snap.3709-T1
Valid prediction for Augustus_model.g11007.t1
Valid prediction for snap_scaffold_6-snap.3718-T1
Valid prediction for snap_scaffold_6-snap.3725-T1
Couldn't classify 46062, 46539
Sorry, prediction pasa_asmbl_47760.p1 fails validation.
(ATG)	 CT	43220-45795	GT	AGG
(GCA)	 AG	46062-46539	CA	AGC
-recovered pasa_asmbl_47760.p1, initial, 43220, 45795
Valid prediction for snap_scaffold_6-snap.3722-T1
Valid prediction for GlimmerHMM_glimmerT_16425-T1
Valid prediction for snap_scaffold_6-snap.3728-T1
Valid prediction for GlimmerHMM_glimmerT_16440-T1
Valid prediction for snap_scaffold_6-snap.3719-T1
Valid prediction for Augustus_model.g11003.t1
Valid prediction for pasa_asmbl_47756.p1
Valid prediction for GlimmerHMM_glimmerT_16428-T1
Valid prediction for GlimmerHMM_glimmerT_16429-T1
Valid prediction for snap_scaffold_6-snap.3734-T1
Valid prediction for snap_scaffold_6-snap.3710-T1
Valid prediction for GlimmerHMM_glimmerT_16436-T1
Valid prediction for GlimmerHMM_glimmerT_16434-T1
Valid prediction for snap_scaffold_6-snap.3720-T1
Valid prediction for Augustus_model.g11008.t1
Valid prediction for GlimmerHMM_glimmerT_16444-T1
Valid prediction for GlimmerHMM_glimmerT_16442-T1
Valid prediction for snap_scaffold_6-snap.3716-T1
Valid prediction for snap_scaffold_6-snap.3706-T1
Valid prediction for snap_scaffold_6-snap.3712-T1
Valid prediction for GlimmerHMM_glimmerT_16433-T1
Couldn't classify 52955, 53284
Sorry, prediction pasa_asmbl_47765.p2 fails validation.
(ATG)	 GG	52955-53284	CA	TGC
Valid prediction for Augustus_model.g11004.t1
Valid prediction for GlimmerHMM_glimmerT_16439-T1
Valid prediction for snap_scaffold_6-snap.3708-T1
Valid prediction for snap_scaffold_6-snap.3731-T1
Valid prediction for Augustus_model.g11001.t1
Valid prediction for snap_scaffold_6-snap.3705-T1
Valid prediction for snap_scaffold_6-snap.3727-T1
Valid prediction for snap_scaffold_6-snap.3730-T1
Valid prediction for Augustus_model.g11013.t1
Valid prediction for snap_scaffold_6-snap.3715-T1
Valid prediction for Augustus_model.g11002.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 GlimmerHMM_glimmerT_16443-T1
Valid prediction for GlimmerHMM_glimmerT_16427-T1
Valid prediction for snap_scaffold_6-snap.3733-T1
Valid prediction for Augustus_model.g11011.t1
Valid prediction for GlimmerHMM_glimmerT_16431-T1
Valid prediction for snap_scaffold_6-snap.3721-T1
Valid prediction for GlimmerHMM_glimmerT_16435-T1
Valid prediction for snap_scaffold_6-snap.3713-T1
Valid prediction for HiQ_model.g11006.t1
Valid prediction for snap_scaffold_6-snap.3729-T1
Valid prediction for GlimmerHMM_glimmerT_16430-T1
Valid prediction for GlimmerHMM_glimmerT_16438-T1
Valid prediction for Augustus_model.g11005.t1
Valid prediction for Augustus_model.g11010.t1
Couldn't classify 100170, 100256
Couldn't classify 104175, 104408
Sorry, prediction pasa_asmbl_49191.p1 fails validation.
(GTG)	 CC	100170-100256	GT	AGG
(GTT)	 AG	101316-101550	GT	TGG
(ATG)	 AG	101658-101713	GT	AGG
(GTG)	 AG	101873-101977	GT	AGG
(GTC)	 AG	102481-102628	GT	AGG
(GAT)	 AG	103016-103098	GT	AGG
(GAG)	 AG	104175-104408	GG	AGG
-recovered pasa_asmbl_49191.p1, initial, 101658, 101713
-recovered pasa_asmbl_49191.p1, internal, 101316, 101550
-recovered pasa_asmbl_49191.p1, internal, 101658, 101713
-recovered pasa_asmbl_49191.p1, internal, 101873, 101977
-recovered pasa_asmbl_49191.p1, internal, 102481, 102628
-recovered pasa_asmbl_49191.p1, internal, 103016, 103098
Valid prediction for snap_scaffold_6-snap.3717-T1
Valid prediction for snap_scaffold_6-snap.3714-T1
Valid prediction for snap_scaffold_6-snap.3726-T1
Valid prediction for snap_scaffold_6-snap.3732-T1
Valid prediction for snap_scaffold_6-snap.3723-T1
Valid prediction for snap_scaffold_6-snap.3711-T1
Valid prediction for GlimmerHMM_glimmerT_16437-T1
Valid prediction for Augustus_model.g11009.t1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 31177, rend_intergenic: 24502  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35471, rend_intergenic: 31271  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70711, rend_intergenic: 65472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77354, rend_intergenic: 71952  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79796, rend_intergenic: 77361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91043, rend_intergenic: 85156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91545, rend_intergenic: 91071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105939, rend_intergenic: 92928  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 133340
-exon list size: 234


building trellis

0.4    
0.8    
1.3    
1.7    
2.1    
2.5    
3.0    
3.4    
3.8    
4.2    
4.7    
5.1    
5.5    
5.9    
6.4    
6.8    
7.2    
7.6    
8.1    
8.5    
8.9    
9.3    
9.7    
10.2    
10.6    
11.0    
11.4    
11.9    
12.3    
12.7    
13.1    
13.6    
14.0    
14.4    
14.8    
15.3    
15.7    
16.1    
16.5    
16.9    
17.4    
17.8    
18.2    
18.6    
19.1    
19.5    
19.9    
20.3    
20.8    
21.2    
21.6    
22.0    
22.5    
22.9    
23.3    
23.7    
24.2    
24.6    
25.0    
25.4    
25.8    
26.3    
26.7    
27.1    
27.5    
28.0    
28.4    
28.8    
29.2    
29.7    
30.1    
30.5    
30.9    
31.4    
31.8    
32.2    
32.6    
33.1    
33.5    
33.9    
34.3    
34.7    
35.2    
35.6    
36.0    
36.4    
36.9    
37.3    
37.7    
38.1    
38.6    
39.0    
39.4    
39.8    
40.3    
40.7    
41.1    
41.5    
41.9    
42.4    
42.8    
43.2    
43.6    
44.1    
44.5    
44.9    
45.3    
45.8    
46.2    
46.6    
47.0    
47.5    
47.9    
48.3    
48.7    
49.2    
49.6    
50.0    
50.4    
50.8    
51.3    
51.7    
52.1    
52.5    
53.0    
53.4    
53.8    
54.2    
54.7    
55.1    
55.5    
55.9    
56.4    
56.8    
57.2    
57.6    
58.1    
58.5    
58.9    
59.3    
59.7    
60.2    
60.6    
61.0    
61.4    
61.9    
62.3    
62.7    
63.1    
63.6    
64.0    
64.4    
64.8    
65.3    
65.7    
66.1    
66.5    
66.9    
67.4    
67.8    
68.2    
68.6    
69.1    
69.5    
69.9    
70.3    
70.8    
71.2    
71.6    
72.0    
72.5    
72.9    
73.3    
73.7    
74.2    
74.6    
75.0    
75.4    
75.8    
76.3    
76.7    
77.1    
77.5    
78.0    
78.4    
78.8    
79.2    
79.7    
80.1    
80.5    
80.9    
81.4    
81.8    
82.2    
82.6    
83.1    
83.5    
83.9    
84.3    
84.7    
85.2    
85.6    
86.0    
86.4    
86.9    
87.3    
87.7    
88.1    
88.6    
89.0    
89.4    
89.8    
90.3    
90.7    
91.1    
91.5    
91.9    
92.4    
92.8    
93.2    
93.6    
94.1    
94.5    
94.9    
95.3    
95.8    
96.2    
96.6    
97.0    
97.5    
97.9    
98.3    
98.7    
99.2    
99.6    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 31177, rend_intergenic: 24502  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 35471, rend_intergenic: 31271  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 70711, rend_intergenic: 65472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 77354, rend_intergenic: 71952  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79796, rend_intergenic: 77361  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91043, rend_intergenic: 85156  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 91545, rend_intergenic: 91071  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 105939, rend_intergenic: 92928  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