-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_22/scaffold_22_9567224-9732510

-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_22-snap.1975-T1
Couldn't classify 148113, 148141
Couldn't classify 150708, 150750
Sorry, prediction pasa_asmbl_30312.p2 fails validation.
(GAG)	 CG	148113-148141	GT	AGG
(GAG)	 AG	149260-149458	GT	AGG
(GAT)	 AG	149794-149996	GT	AGG
(GTT)	 AG	150708-150750	GG	GAG
-recovered pasa_asmbl_30312.p2, internal, 149260, 149458
-recovered pasa_asmbl_30312.p2, internal, 149794, 149996
Valid prediction for snap_scaffold_22-snap.1948-T1
Valid prediction for Augustus_model.g33389.t1
Valid prediction for snap_scaffold_22-snap.1962-T1
Valid prediction for Augustus_model.g33382.t1
Valid prediction for snap_scaffold_22-snap.1953-T1
Valid prediction for GlimmerHMM_glimmerT_50043-T1
Valid prediction for snap_scaffold_22-snap.1984-T1
Valid prediction for snap_scaffold_22-snap.1958-T1
Valid prediction for snap_scaffold_22-snap.1978-T1
Valid prediction for GlimmerHMM_glimmerT_50058-T1
Couldn't classify 71538, 71693
Sorry, prediction pasa_asmbl_30511.p1 fails validation.
(ATG)	 AC	66804-66983	GT	AGG
(CGA)	 AG	67314-67547	GT	GGG
(ATG)	 AG	68126-68200	GT	TGG
(ACA)	 AG	69059-69148	GT	AGG
(GAG)	 AG	69451-69594	GT	AGG
(GTG)	 AG	70050-70138	GT	GGG
(GTT)	 AG	70427-70523	GT	AGG
(GAC)	 AG	71538-71693	AT	AGA
-recovered pasa_asmbl_30511.p1, initial, 66804, 66983
-recovered pasa_asmbl_30511.p1, initial, 68126, 68200
-recovered pasa_asmbl_30511.p1, internal, 67314, 67547
-recovered pasa_asmbl_30511.p1, internal, 68126, 68200
-recovered pasa_asmbl_30511.p1, internal, 69059, 69148
-recovered pasa_asmbl_30511.p1, internal, 69451, 69594
-recovered pasa_asmbl_30511.p1, internal, 70050, 70138
-recovered pasa_asmbl_30511.p1, internal, 70427, 70523
Valid prediction for GlimmerHMM_glimmerT_50060-T1
Valid prediction for snap_scaffold_22-snap.1952-T1
Valid prediction for snap_scaffold_22-snap.1981-T1
Valid prediction for GlimmerHMM_glimmerT_50061-T1
Valid prediction for snap_scaffold_22-snap.1950-T1
Valid prediction for Augustus_model.g33378.t1
Valid prediction for GlimmerHMM_glimmerT_50041-T1
Valid prediction for Augustus_model.g33386.t1
Couldn't classify 157617, 157745
Couldn't classify 158920, 159129
Sorry, prediction pasa_asmbl_30317.p1 fails validation.
(CAG)	 CC	157617-157745	GT	AGG
(GGG)	 AG	157914-158056	GT	AAG
(GGA)	 AG	158134-158300	GT	AGG
(CAG)	 AG	158401-158528	GT	AGG
(GCG)	 AG	158920-159129	GG	GTG
-recovered pasa_asmbl_30317.p1, internal, 157914, 158056
-recovered pasa_asmbl_30317.p1, internal, 158134, 158300
-recovered pasa_asmbl_30317.p1, internal, 158401, 158528
Valid prediction for snap_scaffold_22-snap.1964-T1
Sorry, intron length (7) is less than minimum required (10)
Valid prediction for snap_scaffold_22-snap.1965-T1
Valid prediction for GlimmerHMM_glimmerT_50051-T1
Valid prediction for snap_scaffold_22-snap.1959-T1
Couldn't classify 150707, 150786
Couldn't classify 155597, 155707
Sorry, prediction pasa_asmbl_30316.p1 fails validation.
(GGT)	 CA	150707-150786	GT	AGG
(GAT)	 AG	150997-151156	GT	AGG
(GTG)	 AG	151328-151432	GT	TGG
(GAA)	 AG	151784-151975	GT	AGG
(GAG)	 AG	154739-154846	GT	AGG
(GCC)	 AG	155212-155364	GT	AGG
(GCT)	 AG	155597-155707	CT	GCC
-recovered pasa_asmbl_30316.p1, internal, 150997, 151156
-recovered pasa_asmbl_30316.p1, internal, 151328, 151432
-recovered pasa_asmbl_30316.p1, internal, 151784, 151975
-recovered pasa_asmbl_30316.p1, internal, 154739, 154846
-recovered pasa_asmbl_30316.p1, internal, 155212, 155364
Valid prediction for GlimmerHMM_glimmerT_50055-T1
Valid prediction for snap_scaffold_22-snap.1972-T1
Valid prediction for snap_scaffold_22-snap.1963-T1
Valid prediction for snap_scaffold_22-snap.1986-T1
Valid prediction for snap_scaffold_22-snap.1955-T1
Valid prediction for snap_scaffold_22-snap.1970-T1
Valid prediction for snap_scaffold_22-snap.1979-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_22-snap.1949-T1
Valid prediction for pasa_asmbl_29553.p1
Valid prediction for GlimmerHMM_glimmerT_50044-T1
Valid prediction for Augustus_model.g33387.t1
Valid prediction for snap_scaffold_22-snap.1974-T1
Valid prediction for HiQ_model.g33380.t1
Valid prediction for snap_scaffold_22-snap.1966-T1
Valid prediction for snap_scaffold_22-snap.1967-T1
Valid prediction for HiQ_model.g33377.t1
Valid prediction for CodingQuarry_transcript_34259-T1
Valid prediction for GlimmerHMM_glimmerT_50046-T1
Valid prediction for snap_scaffold_22-snap.1961-T1
Valid prediction for GlimmerHMM_glimmerT_50052-T1
Valid prediction for GlimmerHMM_glimmerT_50048-T1
Valid prediction for snap_scaffold_22-snap.1973-T1
Valid prediction for Augustus_model.g33388.t1
Valid prediction for Augustus_model.g33376.t1
Valid prediction for snap_scaffold_22-snap.1957-T1
Valid prediction for snap_scaffold_22-snap.1982-T1
Valid prediction for snap_scaffold_22-snap.1985-T1
Valid prediction for Augustus_model.g33384.t1
Valid prediction for Augustus_model.g33383.t1
Valid prediction for snap_scaffold_22-snap.1977-T1
Valid prediction for snap_scaffold_22-snap.1960-T1
Valid prediction for GlimmerHMM_glimmerT_50057-T1
Valid prediction for Augustus_model.g33385.t1
Valid prediction for GlimmerHMM_glimmerT_50045-T1
Valid prediction for snap_scaffold_22-snap.1980-T1
Valid prediction for snap_scaffold_22-snap.1956-T1
Valid prediction for pasa_asmbl_29550.p1
Valid prediction for GlimmerHMM_glimmerT_50053-T1
Valid prediction for GlimmerHMM_glimmerT_50042-T1
Valid prediction for snap_scaffold_22-snap.1951-T1
Valid prediction for GlimmerHMM_glimmerT_50059-T1
Valid prediction for Augustus_model.g33379.t1
Valid prediction for CodingQuarry_transcript_34261-T1
Valid prediction for snap_scaffold_22-snap.1971-T1
Valid prediction for snap_scaffold_22-snap.1976-T1
Valid prediction for snap_scaffold_22-snap.1969-T1
Valid prediction for GlimmerHMM_glimmerT_50047-T1
Valid prediction for snap_scaffold_22-snap.1983-T1
Valid prediction for GlimmerHMM_glimmerT_50054-T1
Valid prediction for Augustus_model.g33375.t1
Valid prediction for GlimmerHMM_glimmerT_50049-T1
Valid prediction for GlimmerHMM_glimmerT_50050-T1
Valid prediction for GlimmerHMM_glimmerT_50040-T1
Valid prediction for Augustus_model.g33381.t1
Valid prediction for snap_scaffold_22-snap.1968-T1
Valid prediction for snap_scaffold_22-snap.1954-T1
Valid prediction for GlimmerHMM_glimmerT_50056-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 9272, rend_intergenic: 5891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12010, rend_intergenic: 10085  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20653, rend_intergenic: 13434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23104, rend_intergenic: 21472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64812, rend_intergenic: 59322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79814, rend_intergenic: 67322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95800, rend_intergenic: 92973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102197, rend_intergenic: 99994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119455, rend_intergenic: 115003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133260, rend_intergenic: 120956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137981, rend_intergenic: 133396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152784, rend_intergenic: 143692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157859, rend_intergenic: 153268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158060, rend_intergenic: 157872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162167, rend_intergenic: 158150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 165287
-exon list size: 380


building trellis

0.3    
0.5    
0.8    
1.0    
1.3    
1.6    
1.8    
2.1    
2.4    
2.6    
2.9    
3.1    
3.4    
3.7    
3.9    
4.2    
4.5    
4.7    
5.0    
5.2    
5.5    
5.8    
6.0    
6.3    
6.5    
6.8    
7.1    
7.3    
7.6    
7.9    
8.1    
8.4    
8.6    
8.9    
9.2    
9.4    
9.7    
9.9    
10.2    
10.5    
10.7    
11.0    
11.3    
11.5    
11.8    
12.0    
12.3    
12.6    
12.8    
13.1    
13.4    
13.6    
13.9    
14.1    
14.4    
14.7    
14.9    
15.2    
15.4    
15.7    
16.0    
16.2    
16.5    
16.8    
17.0    
17.3    
17.5    
17.8    
18.1    
18.3    
18.6    
18.8    
19.1    
19.4    
19.6    
19.9    
20.2    
20.4    
20.7    
20.9    
21.2    
21.5    
21.7    
22.0    
22.3    
22.5    
22.8    
23.0    
23.3    
23.6    
23.8    
24.1    
24.3    
24.6    
24.9    
25.1    
25.4    
25.7    
25.9    
26.2    
26.4    
26.7    
27.0    
27.2    
27.5    
27.7    
28.0    
28.3    
28.5    
28.8    
29.1    
29.3    
29.6    
29.8    
30.1    
30.4    
30.6    
30.9    
31.2    
31.4    
31.7    
31.9    
32.2    
32.5    
32.7    
33.0    
33.2    
33.5    
33.8    
34.0    
34.3    
34.6    
34.8    
35.1    
35.3    
35.6    
35.9    
36.1    
36.4    
36.6    
36.9    
37.2    
37.4    
37.7    
38.0    
38.2    
38.5    
38.7    
39.0    
39.3    
39.5    
39.8    
40.1    
40.3    
40.6    
40.8    
41.1    
41.4    
41.6    
41.9    
42.1    
42.4    
42.7    
42.9    
43.2    
43.5    
43.7    
44.0    
44.2    
44.5    
44.8    
45.0    
45.3    
45.5    
45.8    
46.1    
46.3    
46.6    
46.9    
47.1    
47.4    
47.6    
47.9    
48.2    
48.4    
48.7    
49.0    
49.2    
49.5    
49.7    
50.0    
50.3    
50.5    
50.8    
51.0    
51.3    
51.6    
51.8    
52.1    
52.4    
52.6    
52.9    
53.1    
53.4    
53.7    
53.9    
54.2    
54.5    
54.7    
55.0    
55.2    
55.5    
55.8    
56.0    
56.3    
56.5    
56.8    
57.1    
57.3    
57.6    
57.9    
58.1    
58.4    
58.6    
58.9    
59.2    
59.4    
59.7    
59.9    
60.2    
60.5    
60.7    
61.0    
61.3    
61.5    
61.8    
62.0    
62.3    
62.6    
62.8    
63.1    
63.4    
63.6    
63.9    
64.1    
64.4    
64.7    
64.9    
65.2    
65.4    
65.7    
66.0    
66.2    
66.5    
66.8    
67.0    
67.3    
67.5    
67.8    
68.1    
68.3    
68.6    
68.8    
69.1    
69.4    
69.6    
69.9    
70.2    
70.4    
70.7    
70.9    
71.2    
71.5    
71.7    
72.0    
72.3    
72.5    
72.8    
73.0    
73.3    
73.6    
73.8    
74.1    
74.3    
74.6    
74.9    
75.1    
75.4    
75.7    
75.9    
76.2    
76.4    
76.7    
77.0    
77.2    
77.5    
77.7    
78.0    
78.3    
78.5    
78.8    
79.1    
79.3    
79.6    
79.8    
80.1    
80.4    
80.6    
80.9    
81.2    
81.4    
81.7    
81.9    
82.2    
82.5    
82.7    
83.0    
83.2    
83.5    
83.8    
84.0    
84.3    
84.6    
84.8    
85.1    
85.3    
85.6    
85.9    
86.1    
86.4    
86.6    
86.9    
87.2    
87.4    
87.7    
88.0    
88.2    
88.5    
88.7    
89.0    
89.3    
89.5    
89.8    
90.1    
90.3    
90.6    
90.8    
91.1    
91.4    
91.6    
91.9    
92.1    
92.4    
92.7    
92.9    
93.2    
93.5    
93.7    
94.0    
94.2    
94.5    
94.8    
95.0    
95.3    
95.5    
95.8    
96.1    
96.3    
96.6    
96.9    
97.1    
97.4    
97.6    
97.9    
98.2    
98.4    
98.7    
99.0    
99.2    
99.5    
99.7    
-found 23 predictions from path traversal
Error with prediction: snap lend_intergenic: 9272, rend_intergenic: 5891  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 12010, rend_intergenic: 10085  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 20653, rend_intergenic: 13434  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 23104, rend_intergenic: 21472  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 64812, rend_intergenic: 59322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79814, rend_intergenic: 67322  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 95800, rend_intergenic: 92973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102197, rend_intergenic: 99994  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 119455, rend_intergenic: 115003  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 133260, rend_intergenic: 120956  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 137981, rend_intergenic: 133396  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 152784, rend_intergenic: 143692  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 157859, rend_intergenic: 153268  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 158060, rend_intergenic: 157872  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 162167, rend_intergenic: 158150  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support