-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_10/scaffold_10_10573160-10773545

-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_10-snap.2064-T1
Valid prediction for snap_scaffold_10-snap.2091-T1
Couldn't classify 55588, 55725
Sorry, prediction pasa_asmbl_3431.p1 fails validation.
(ATG)	 GA	54418-54489	GT	AGG
(GAC)	 AG	55346-55468	GT	TGG
(GAG)	 AG	55588-55725	GA	ACG
-recovered pasa_asmbl_3431.p1, initial, 54418, 54489
-recovered pasa_asmbl_3431.p1, internal, 55346, 55468
Valid prediction for snap_scaffold_10-snap.2094-T1
Valid prediction for snap_scaffold_10-snap.2076-T1
Valid prediction for Augustus_model.g16874.t1
Valid prediction for snap_scaffold_10-snap.2099-T1
Valid prediction for snap_scaffold_10-snap.2101-T1
Couldn't classify 36329, 36445
Sorry, prediction pasa_asmbl_3430.p1 fails validation.
(AGA)	 TC	36329-36445	GT	GGG
(ATC)	 AG	37175-37262	GT	AGG
(AGT)	 AG	37463-37543	GT	AGG
(GAA)	 AG	37845-37960	GC	AGG
(GAG)	 AG	38428-38607	GT	TGG
(CTG)	 AG	39490-39660	CC	AAC
-recovered pasa_asmbl_3430.p1, terminal, 37463, 37543
-recovered pasa_asmbl_3430.p1, terminal, 39490, 39660
-recovered pasa_asmbl_3430.p1, internal, 37175, 37262
-recovered pasa_asmbl_3430.p1, internal, 37463, 37543
-recovered pasa_asmbl_3430.p1, internal, 37845, 37960
-recovered pasa_asmbl_3430.p1, internal, 38428, 38607
Valid prediction for GlimmerHMM_glimmerT_25370-T1
Valid prediction for snap_scaffold_10-snap.2084-T1
Valid prediction for GlimmerHMM_glimmerT_25362-T1
Valid prediction for snap_scaffold_10-snap.2071-T1
Valid prediction for Augustus_model.g16873.t1
Valid prediction for snap_scaffold_10-snap.2095-T1
Valid prediction for Augustus_model.g16867.t1
Couldn't classify 23487, 24425
Sorry, prediction pasa_asmbl_3427.p1 fails validation.
(ATG)	 GG	23487-24425	GA	AGG
Valid prediction for snap_scaffold_10-snap.2081-T1
Valid prediction for Augustus_model.g16872.t1
Valid prediction for snap_scaffold_10-snap.2089-T1
Valid prediction for snap_scaffold_10-snap.2069-T1
Valid prediction for snap_scaffold_10-snap.2087-T1
Valid prediction for GlimmerHMM_glimmerT_25356-T1
Valid prediction for snap_scaffold_10-snap.2070-T1
Couldn't classify 28297, 28527
Couldn't classify 33057, 33179
Sorry, prediction pasa_asmbl_3428.p1 fails validation.
(GAT)	 CA	28297-28527	GT	AGG
(TCT)	 AG	28624-28761	GT	TCG
(CCT)	 AG	29292-29363	GT	AGG
(GAC)	 AG	30297-30382	GT	CGG
(ACA)	 AG	30929-30989	GT	AGG
(TGT)	 AG	32170-32316	GT	AGG
(GGT)	 AG	33057-33179	GG	ACG
-recovered pasa_asmbl_3428.p1, internal, 28624, 28761
-recovered pasa_asmbl_3428.p1, internal, 29292, 29363
-recovered pasa_asmbl_3428.p1, internal, 30297, 30382
-recovered pasa_asmbl_3428.p1, internal, 30929, 30989
-recovered pasa_asmbl_3428.p1, internal, 32170, 32316
Valid prediction for Augustus_model.g16864.t1
Valid prediction for GlimmerHMM_glimmerT_25365-T1
Valid prediction for pasa_asmbl_3432.p1
Valid prediction for snap_scaffold_10-snap.2077-T1
Valid prediction for snap_scaffold_10-snap.2072-T1
Valid prediction for GlimmerHMM_glimmerT_25354-T1
Valid prediction for GlimmerHMM_glimmerT_25369-T1
Valid prediction for snap_scaffold_10-snap.2088-T1
Valid prediction for snap_scaffold_10-snap.2098-T1
Valid prediction for Augustus_model.g16866.t1
Valid prediction for GlimmerHMM_glimmerT_25357-T1
Valid prediction for snap_scaffold_10-snap.2074-T1
Valid prediction for GlimmerHMM_glimmerT_25366-T1
Valid prediction for snap_scaffold_10-snap.2062-T1
Valid prediction for snap_scaffold_10-snap.2086-T1
Valid prediction for Augustus_model.g16875.t1
Valid prediction for Augustus_model.g16871.t1
Valid prediction for snap_scaffold_10-snap.2093-T1
Valid prediction for GlimmerHMM_glimmerT_25367-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 Augustus_model.g16869.t1
Valid prediction for Augustus_model.g16865.t1
Valid prediction for snap_scaffold_10-snap.2063-T1
Valid prediction for GlimmerHMM_glimmerT_25353-T1
Valid prediction for snap_scaffold_10-snap.2090-T1
Valid prediction for snap_scaffold_10-snap.2096-T1
Valid prediction for GlimmerHMM_glimmerT_25364-T1
Valid prediction for HiQ_model.g16868.t1
Valid prediction for GlimmerHMM_glimmerT_25358-T1
Valid prediction for CodingQuarry_transcript_5558-T1
Valid prediction for GlimmerHMM_glimmerT_25368-T1
Valid prediction for GlimmerHMM_glimmerT_25351-T1
Valid prediction for GlimmerHMM_glimmerT_25359-T1
Valid prediction for snap_scaffold_10-snap.2083-T1
Valid prediction for snap_scaffold_10-snap.2061-T1
Valid prediction for snap_scaffold_10-snap.2100-T1
Valid prediction for snap_scaffold_10-snap.2092-T1
Valid prediction for snap_scaffold_10-snap.2075-T1
Couldn't classify 120312, 120426
Couldn't classify 122087, 122337
Sorry, prediction pasa_asmbl_4755.p1 fails validation.
(CTC)	 GG	120312-120426	GT	CAG
(GCA)	 AG	121447-121677	GT	TGG
(AGT)	 AG	121857-121982	GT	AGG
(GCA)	 AG	122087-122337	GG	ATG
-recovered pasa_asmbl_4755.p1, internal, 121447, 121677
-recovered pasa_asmbl_4755.p1, internal, 121857, 121982
Valid prediction for GlimmerHMM_glimmerT_25355-T1
Valid prediction for GlimmerHMM_glimmerT_25360-T1
Valid prediction for snap_scaffold_10-snap.2073-T1
Valid prediction for Augustus_model.g16863.t1
Valid prediction for snap_scaffold_10-snap.2079-T1
Couldn't classify 105935, 107594
Couldn't classify 107852, 107943
Sorry, prediction pasa_asmbl_4756.p1 fails validation.
(TTC)	 AT	105935-107594	GT	AGG
(CTG)	 AG	107852-107943	AA	GTA
Valid prediction for CodingQuarry_transcript_5557-T1
Valid prediction for snap_scaffold_10-snap.2097-T1
Valid prediction for pasa_asmbl_4754.p1
Valid prediction for snap_scaffold_10-snap.2067-T1
Valid prediction for GlimmerHMM_glimmerT_25363-T1
Valid prediction for snap_scaffold_10-snap.2068-T1
Valid prediction for snap_scaffold_10-snap.2078-T1
Valid prediction for Augustus_model.g16870.t1
Valid prediction for snap_scaffold_10-snap.2080-T1
Valid prediction for snap_scaffold_10-snap.2085-T1
Valid prediction for CodingQuarry_transcript_5556-T1
Valid prediction for GlimmerHMM_glimmerT_25352-T1
Valid prediction for snap_scaffold_10-snap.2082-T1
Valid prediction for snap_scaffold_10-snap.2065-T1
Valid prediction for snap_scaffold_10-snap.2066-T1
Valid prediction for GlimmerHMM_glimmerT_25361-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7644, rend_intergenic: 1569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39660, rend_intergenic: 16204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50068, rend_intergenic: 42864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72707, rend_intergenic: 68222  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72907, rend_intergenic: 72763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80805, rend_intergenic: 76032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127267, rend_intergenic: 123575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139516, rend_intergenic: 131529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165241, rend_intergenic: 156330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169081, rend_intergenic: 167200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183088, rend_intergenic: 179495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194182, rend_intergenic: 188041  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 200386
-exon list size: 359


building trellis

0.3    
0.6    
0.8    
1.1    
1.4    
1.7    
1.9    
2.2    
2.5    
2.8    
3.0    
3.3    
3.6    
3.9    
4.2    
4.4    
4.7    
5.0    
5.3    
5.5    
5.8    
6.1    
6.4    
6.6    
6.9    
7.2    
7.5    
7.8    
8.0    
8.3    
8.6    
8.9    
9.1    
9.4    
9.7    
10.0    
10.2    
10.5    
10.8    
11.1    
11.4    
11.6    
11.9    
12.2    
12.5    
12.7    
13.0    
13.3    
13.6    
13.9    
14.1    
14.4    
14.7    
15.0    
15.2    
15.5    
15.8    
16.1    
16.3    
16.6    
16.9    
17.2    
17.5    
17.7    
18.0    
18.3    
18.6    
18.8    
19.1    
19.4    
19.7    
19.9    
20.2    
20.5    
20.8    
21.1    
21.3    
21.6    
21.9    
22.2    
22.4    
22.7    
23.0    
23.3    
23.5    
23.8    
24.1    
24.4    
24.7    
24.9    
25.2    
25.5    
25.8    
26.0    
26.3    
26.6    
26.9    
27.1    
27.4    
27.7    
28.0    
28.3    
28.5    
28.8    
29.1    
29.4    
29.6    
29.9    
30.2    
30.5    
30.7    
31.0    
31.3    
31.6    
31.9    
32.1    
32.4    
32.7    
33.0    
33.2    
33.5    
33.8    
34.1    
34.3    
34.6    
34.9    
35.2    
35.5    
35.7    
36.0    
36.3    
36.6    
36.8    
37.1    
37.4    
37.7    
38.0    
38.2    
38.5    
38.8    
39.1    
39.3    
39.6    
39.9    
40.2    
40.4    
40.7    
41.0    
41.3    
41.6    
41.8    
42.1    
42.4    
42.7    
42.9    
43.2    
43.5    
43.8    
44.0    
44.3    
44.6    
44.9    
45.2    
45.4    
45.7    
46.0    
46.3    
46.5    
46.8    
47.1    
47.4    
47.6    
47.9    
48.2    
48.5    
48.8    
49.0    
49.3    
49.6    
49.9    
50.1    
50.4    
50.7    
51.0    
51.2    
51.5    
51.8    
52.1    
52.4    
52.6    
52.9    
53.2    
53.5    
53.7    
54.0    
54.3    
54.6    
54.8    
55.1    
55.4    
55.7    
56.0    
56.2    
56.5    
56.8    
57.1    
57.3    
57.6    
57.9    
58.2    
58.4    
58.7    
59.0    
59.3    
59.6    
59.8    
60.1    
60.4    
60.7    
60.9    
61.2    
61.5    
61.8    
62.0    
62.3    
62.6    
62.9    
63.2    
63.4    
63.7    
64.0    
64.3    
64.5    
64.8    
65.1    
65.4    
65.7    
65.9    
66.2    
66.5    
66.8    
67.0    
67.3    
67.6    
67.9    
68.1    
68.4    
68.7    
69.0    
69.3    
69.5    
69.8    
70.1    
70.4    
70.6    
70.9    
71.2    
71.5    
71.7    
72.0    
72.3    
72.6    
72.9    
73.1    
73.4    
73.7    
74.0    
74.2    
74.5    
74.8    
75.1    
75.3    
75.6    
75.9    
76.2    
76.5    
76.7    
77.0    
77.3    
77.6    
77.8    
78.1    
78.4    
78.7    
78.9    
79.2    
79.5    
79.8    
80.1    
80.3    
80.6    
80.9    
81.2    
81.4    
81.7    
82.0    
82.3    
82.5    
82.8    
83.1    
83.4    
83.7    
83.9    
84.2    
84.5    
84.8    
85.0    
85.3    
85.6    
85.9    
86.1    
86.4    
86.7    
87.0    
87.3    
87.5    
87.8    
88.1    
88.4    
88.6    
88.9    
89.2    
89.5    
89.8    
90.0    
90.3    
90.6    
90.9    
91.1    
91.4    
91.7    
92.0    
92.2    
92.5    
92.8    
93.1    
93.4    
93.6    
93.9    
94.2    
94.5    
94.7    
95.0    
95.3    
95.6    
95.8    
96.1    
96.4    
96.7    
97.0    
97.2    
97.5    
97.8    
98.1    
98.3    
98.6    
98.9    
99.2    
99.4    
99.7    
-found 21 predictions from path traversal
Error with prediction: snap lend_intergenic: 7644, rend_intergenic: 1569  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 39660, rend_intergenic: 16204  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 50068, rend_intergenic: 42864  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72707, rend_intergenic: 68222  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 72907, rend_intergenic: 72763  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 80805, rend_intergenic: 76032  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127267, rend_intergenic: 123575  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 139516, rend_intergenic: 131529  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165241, rend_intergenic: 156330  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169081, rend_intergenic: 167200  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 183088, rend_intergenic: 179495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194182, rend_intergenic: 188041  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 17 predictions persist after filtering for low support