-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_15665484-15886061

-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.g17328.t1
Valid prediction for snap_scaffold_10-snap.3195-T1
Valid prediction for snap_scaffold_10-snap.3179-T1
Valid prediction for snap_scaffold_10-snap.3190-T1
Valid prediction for GlimmerHMM_glimmerT_26066-T1
Valid prediction for snap_scaffold_10-snap.3184-T1
Valid prediction for GlimmerHMM_glimmerT_26062-T1
Valid prediction for GlimmerHMM_glimmerT_26071-T1
Valid prediction for GlimmerHMM_glimmerT_26054-T1
Valid prediction for GlimmerHMM_glimmerT_26061-T1
Valid prediction for GlimmerHMM_glimmerT_26052-T1
Valid prediction for Augustus_model.g17323.t1
Valid prediction for snap_scaffold_10-snap.3183-T1
Valid prediction for GlimmerHMM_glimmerT_26059-T1
Valid prediction for GlimmerHMM_glimmerT_26070-T1
Valid prediction for snap_scaffold_10-snap.3207-T1
Valid prediction for snap_scaffold_10-snap.3198-T1
Valid prediction for snap_scaffold_10-snap.3212-T1
Valid prediction for HiQ_model.g17329.t1
Valid prediction for Augustus_model.g17319.t1
Valid prediction for snap_scaffold_10-snap.3182-T1
Valid prediction for GlimmerHMM_glimmerT_26056-T1
Valid prediction for snap_scaffold_10-snap.3180-T1
Valid prediction for snap_scaffold_10-snap.3170-T1
Valid prediction for snap_scaffold_10-snap.3194-T1
Valid prediction for snap_scaffold_10-snap.3173-T1
Couldn't classify 214724, 214951
Sorry, prediction pasa_asmbl_3697.p1 fails validation.
(ATG)	 CC	208682-208807	GT	AGG
(ATG)	 AG	211326-211461	GT	AGG
(ATG)	 AG	211859-212127	GT	AGG
(GTG)	 AG	214724-214951	AA	AGA
-recovered pasa_asmbl_3697.p1, initial, 208682, 208807
-recovered pasa_asmbl_3697.p1, initial, 211326, 211461
add_exon() Sorry, pasa_asmbl_3697.p1 211859-212127-initial-1 is invalid.
-recovered pasa_asmbl_3697.p1, initial, 211859, 212127
-recovered pasa_asmbl_3697.p1, internal, 211326, 211461
-recovered pasa_asmbl_3697.p1, internal, 211859, 212127
Valid prediction for snap_scaffold_10-snap.3210-T1
Valid prediction for snap_scaffold_10-snap.3192-T1
Valid prediction for snap_scaffold_10-snap.3177-T1
Valid prediction for snap_scaffold_10-snap.3213-T1
Valid prediction for snap_scaffold_10-snap.3208-T1
Valid prediction for Augustus_model.g17320.t1
Valid prediction for snap_scaffold_10-snap.3186-T1
Valid prediction for snap_scaffold_10-snap.3214-T1
Valid prediction for snap_scaffold_10-snap.3204-T1
Valid prediction for GlimmerHMM_glimmerT_26063-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_10-snap.3211-T1
Valid prediction for snap_scaffold_10-snap.3174-T1
Valid prediction for snap_scaffold_10-snap.3209-T1
Valid prediction for GlimmerHMM_glimmerT_26065-T1
Valid prediction for GlimmerHMM_glimmerT_26055-T1
Couldn't classify 43513, 43707
Sorry, prediction pasa_asmbl_4990.p1 fails validation.
(CTT)	 AC	43513-43707	GT	AGG
(GTC)	 AG	44167-44295	GT	AGG
(GCA)	 AG	44574-44731	GT	GCG
(ACA)	 AG	45475-45691	GT	AGG
(GAC)	 AG	46160-46232	GT	AGG
(GCC)	 AG	46595-46711	GT	CGG
(GTT)	 AG	47283-47401	AG	AGA
-recovered pasa_asmbl_4990.p1, terminal, 47283, 47401
-recovered pasa_asmbl_4990.p1, internal, 44167, 44295
-recovered pasa_asmbl_4990.p1, internal, 44574, 44731
-recovered pasa_asmbl_4990.p1, internal, 45475, 45691
-recovered pasa_asmbl_4990.p1, internal, 46160, 46232
-recovered pasa_asmbl_4990.p1, internal, 46595, 46711
Valid prediction for snap_scaffold_10-snap.3201-T1
Valid prediction for snap_scaffold_10-snap.3193-T1
Valid prediction for snap_scaffold_10-snap.3188-T1
Valid prediction for GlimmerHMM_glimmerT_26064-T1
Valid prediction for Augustus_model.g17321.t1
Valid prediction for snap_scaffold_10-snap.3169-T1
Valid prediction for Augustus_model.g17316.t1
Valid prediction for snap_scaffold_10-snap.3171-T1
Valid prediction for snap_scaffold_10-snap.3172-T1
Valid prediction for GlimmerHMM_glimmerT_26060-T1
Valid prediction for Augustus_model.g17324.t1
Valid prediction for snap_scaffold_10-snap.3206-T1
Valid prediction for snap_scaffold_10-snap.3196-T1
Valid prediction for snap_scaffold_10-snap.3199-T1
Couldn't classify 41485, 41647
Sorry, prediction pasa_asmbl_4991.p1 fails validation.
(GGT)	 CA	41485-41647	GT	AGG
(AGT)	 AG	42273-42440	GT	AGG
(GGC)	 AG	42601-42782	CG	AGC
add_exon() Sorry, pasa_asmbl_4991.p1 42273-42440-terminal-1 is invalid.
-recovered pasa_asmbl_4991.p1, terminal, 42273, 42440
-recovered pasa_asmbl_4991.p1, terminal, 42601, 42782
-recovered pasa_asmbl_4991.p1, internal, 42273, 42440
Valid prediction for Augustus_model.g17317.t1
Valid prediction for snap_scaffold_10-snap.3202-T1
Valid prediction for HiQ_model.g17325.t1
Valid prediction for GlimmerHMM_glimmerT_26050-T1
Valid prediction for snap_scaffold_10-snap.3197-T1
Valid prediction for snap_scaffold_10-snap.3178-T1
Valid prediction for snap_scaffold_10-snap.3181-T1
Valid prediction for GlimmerHMM_glimmerT_26057-T1
Valid prediction for Augustus_model.g17326.t1
Valid prediction for GlimmerHMM_glimmerT_26069-T1
Valid prediction for snap_scaffold_10-snap.3191-T1
Valid prediction for snap_scaffold_10-snap.3205-T1
Valid prediction for snap_scaffold_10-snap.3203-T1
Couldn't classify 40658, 41313
Sorry, prediction pasa_asmbl_4992.p1 fails validation.
(ATG)	 CC	40021-40459	GT	AGG
(GGA)	 AG	40658-41313	GA	GTG
-recovered pasa_asmbl_4992.p1, initial, 40021, 40459
Valid prediction for snap_scaffold_10-snap.3185-T1
Valid prediction for Augustus_model.g17318.t1
Valid prediction for GlimmerHMM_glimmerT_26049-T1
Valid prediction for snap_scaffold_10-snap.3200-T1
Valid prediction for snap_scaffold_10-snap.3187-T1
Valid prediction for snap_scaffold_10-snap.3189-T1
Valid prediction for GlimmerHMM_glimmerT_26068-T1
Valid prediction for GlimmerHMM_glimmerT_26053-T1
Valid prediction for Augustus_model.g17327.t1
Valid prediction for snap_scaffold_10-snap.3176-T1
Valid prediction for Augustus_model.g17322.t1
Valid prediction for GlimmerHMM_glimmerT_26058-T1
Valid prediction for GlimmerHMM_glimmerT_26051-T1
Valid prediction for GlimmerHMM_glimmerT_26067-T1
Valid prediction for snap_scaffold_10-snap.3175-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 7643, rend_intergenic: 5355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38970, rend_intergenic: 14104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79865, rend_intergenic: 69583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97970, rend_intergenic: 82362  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102214, rend_intergenic: 98764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104413, rend_intergenic: 103406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110956, rend_intergenic: 105317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121979, rend_intergenic: 116826  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122627, rend_intergenic: 122129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124482, rend_intergenic: 122780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127181, rend_intergenic: 124769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153044, rend_intergenic: 143556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161040, rend_intergenic: 154852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169232, rend_intergenic: 161813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184242, rend_intergenic: 182685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187676, rend_intergenic: 184499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193433, rend_intergenic: 190214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203838, rend_intergenic: 202507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208716, rend_intergenic: 207665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210674, rend_intergenic: 209254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 220578
-exon list size: 271


building trellis

0.4    
0.7    
1.1    
1.5    
1.8    
2.2    
2.6    
2.9    
3.3    
3.7    
4.0    
4.4    
4.8    
5.1    
5.5    
5.9    
6.2    
6.6    
7.0    
7.3    
7.7    
8.1    
8.4    
8.8    
9.2    
9.5    
9.9    
10.3    
10.6    
11.0    
11.4    
11.7    
12.1    
12.5    
12.8    
13.2    
13.6    
13.9    
14.3    
14.7    
15.0    
15.4    
15.8    
16.1    
16.5    
16.8    
17.2    
17.6    
17.9    
18.3    
18.7    
19.0    
19.4    
19.8    
20.1    
20.5    
20.9    
21.2    
21.6    
22.0    
22.3    
22.7    
23.1    
23.4    
23.8    
24.2    
24.5    
24.9    
25.3    
25.6    
26.0    
26.4    
26.7    
27.1    
27.5    
27.8    
28.2    
28.6    
28.9    
29.3    
29.7    
30.0    
30.4    
30.8    
31.1    
31.5    
31.9    
32.2    
32.6    
33.0    
33.3    
33.7    
34.1    
34.4    
34.8    
35.2    
35.5    
35.9    
36.3    
36.6    
37.0    
37.4    
37.7    
38.1    
38.5    
38.8    
39.2    
39.6    
39.9    
40.3    
40.7    
41.0    
41.4    
41.8    
42.1    
42.5    
42.9    
43.2    
43.6    
44.0    
44.3    
44.7    
45.1    
45.4    
45.8    
46.2    
46.5    
46.9    
47.3    
47.6    
48.0    
48.4    
48.7    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.3    
51.6    
52.0    
52.4    
52.7    
53.1    
53.5    
53.8    
54.2    
54.6    
54.9    
55.3    
55.7    
56.0    
56.4    
56.8    
57.1    
57.5    
57.9    
58.2    
58.6    
59.0    
59.3    
59.7    
60.1    
60.4    
60.8    
61.2    
61.5    
61.9    
62.3    
62.6    
63.0    
63.4    
63.7    
64.1    
64.5    
64.8    
65.2    
65.6    
65.9    
66.3    
66.7    
67.0    
67.4    
67.8    
68.1    
68.5    
68.9    
69.2    
69.6    
70.0    
70.3    
70.7    
71.1    
71.4    
71.8    
72.2    
72.5    
72.9    
73.3    
73.6    
74.0    
74.4    
74.7    
75.1    
75.5    
75.8    
76.2    
76.6    
76.9    
77.3    
77.7    
78.0    
78.4    
78.8    
79.1    
79.5    
79.9    
80.2    
80.6    
81.0    
81.3    
81.7    
82.1    
82.4    
82.8    
83.2    
83.5    
83.9    
84.2    
84.6    
85.0    
85.3    
85.7    
86.1    
86.4    
86.8    
87.2    
87.5    
87.9    
88.3    
88.6    
89.0    
89.4    
89.7    
90.1    
90.5    
90.8    
91.2    
91.6    
91.9    
92.3    
92.7    
93.0    
93.4    
93.8    
94.1    
94.5    
94.9    
95.2    
95.6    
96.0    
96.3    
96.7    
97.1    
97.4    
97.8    
98.2    
98.5    
98.9    
99.3    
99.6    
-found 28 predictions from path traversal
Error with prediction: snap lend_intergenic: 7643, rend_intergenic: 5355  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38970, rend_intergenic: 14104  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79865, rend_intergenic: 69583  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97970, rend_intergenic: 82362  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 102214, rend_intergenic: 98764  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 104413, rend_intergenic: 103406  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110956, rend_intergenic: 105317  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 121979, rend_intergenic: 116826  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122627, rend_intergenic: 122129  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 124482, rend_intergenic: 122780  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127181, rend_intergenic: 124769  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153044, rend_intergenic: 143556  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 161040, rend_intergenic: 154852  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169232, rend_intergenic: 161813  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 184242, rend_intergenic: 182685  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 187676, rend_intergenic: 184499  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 193433, rend_intergenic: 190214  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 203838, rend_intergenic: 202507  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 208716, rend_intergenic: 207665  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 210674, rend_intergenic: 209254  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 18 predictions persist after filtering for low support