-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_21/scaffold_21_3694532-3876243

-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_21-snap.725-T1
Valid prediction for snap_scaffold_21-snap.732-T1
Valid prediction for HiQ_model.g31614.t1
Valid prediction for Augustus_model.g31605.t1
Valid prediction for Augustus_model.g31600.t1
Valid prediction for GlimmerHMM_glimmerT_47434-T1
Couldn't classify 172681, 172945
Sorry, prediction pasa_asmbl_28492.p1 fails validation.
(CAC)	 TG	172681-172945	GT	AGG
(GCT)	 AG	173228-173424	GT	CAG
(CAC)	 AG	173740-173812	GT	AGG
(CGG)	 AG	173953-174029	AC	GAA
-recovered pasa_asmbl_28492.p1, terminal, 173953, 174029
-recovered pasa_asmbl_28492.p1, internal, 173228, 173424
-recovered pasa_asmbl_28492.p1, internal, 173740, 173812
Valid prediction for snap_scaffold_21-snap.733-T1
Valid prediction for Augustus_model.g31597.t1
Valid prediction for snap_scaffold_21-snap.714-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 24303, 24350
Sorry, prediction pasa_asmbl_28488.p1 fails validation.
(ATG)	 CA	23821-23934	GT	AGG
(GGT)	 AG	24056-24190	GT	AGG
(GCT)	 AG	24303-24350	GC	TGG
-recovered pasa_asmbl_28488.p1, initial, 23821, 23934
-recovered pasa_asmbl_28488.p1, internal, 24056, 24190
-recovered pasa_asmbl_28488.p1, internal, 24303, 24350
Valid prediction for snap_scaffold_21-snap.706-T1
Valid prediction for snap_scaffold_21-snap.705-T1
Valid prediction for snap_scaffold_21-snap.708-T1
Valid prediction for snap_scaffold_21-snap.704-T1
Valid prediction for GlimmerHMM_glimmerT_47419-T1
Valid prediction for GlimmerHMM_glimmerT_47435-T1
Valid prediction for snap_scaffold_21-snap.735-T1
Valid prediction for GlimmerHMM_glimmerT_47416-T1
Valid prediction for Augustus_model.g31604.t1
Valid prediction for CodingQuarry_transcript_32488-T1
Couldn't classify 24557, 24697
Sorry, prediction pasa_asmbl_28489.p1 fails validation.
(GTG)	 AG	24557-24697	GT	TCG
(TTC)	 AG	26386-26640	GT	AGG
(ATC)	 AG	26952-27290	CT	AGC
-recovered pasa_asmbl_28489.p1, terminal, 26952, 27290
-recovered pasa_asmbl_28489.p1, internal, 24557, 24697
-recovered pasa_asmbl_28489.p1, internal, 26386, 26640
Valid prediction for GlimmerHMM_glimmerT_47433-T1
Valid prediction for Augustus_model.g31610.t1
Valid prediction for GlimmerHMM_glimmerT_47429-T1
Valid prediction for GlimmerHMM_glimmerT_47418-T1
Valid prediction for snap_scaffold_21-snap.707-T1
Valid prediction for snap_scaffold_21-snap.720-T1
Valid prediction for snap_scaffold_21-snap.710-T1
Valid prediction for snap_scaffold_21-snap.703-T1
Couldn't classify 101908, 102270
Sorry, prediction pasa_asmbl_28491.p1 fails validation.
(ATG)	 AC	101908-102270	AA	GGA
Valid prediction for GlimmerHMM_glimmerT_47430-T1
Valid prediction for snap_scaffold_21-snap.724-T1
Valid prediction for snap_scaffold_21-snap.719-T1
Valid prediction for GlimmerHMM_glimmerT_47425-T1
Valid prediction for Augustus_model.g31598.t1
Valid prediction for snap_scaffold_21-snap.727-T1
Valid prediction for snap_scaffold_21-snap.721-T1
Valid prediction for snap_scaffold_21-snap.701-T1
Valid prediction for Augustus_model.g31612.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_21-snap.713-T1
Valid prediction for snap_scaffold_21-snap.736-T1
Valid prediction for snap_scaffold_21-snap.731-T1
Valid prediction for Augustus_model.g31596.t1
Valid prediction for snap_scaffold_21-snap.711-T1
Couldn't classify 47121, 47234
Sorry, prediction pasa_asmbl_27552.p1 fails validation.
(ACA)	 CA	47121-47234	GT	AGG
(ACG)	 AG	48199-48406	GT	GAG
(ACC)	 AG	49064-49137	GT	AGG
(GAC)	 AG	49753-49934	GT	AGG
(GTG)	 AG	51902-52016	AA	AGA
-recovered pasa_asmbl_27552.p1, terminal, 51902, 52016
-recovered pasa_asmbl_27552.p1, internal, 48199, 48406
-recovered pasa_asmbl_27552.p1, internal, 49064, 49137
-recovered pasa_asmbl_27552.p1, internal, 49753, 49934
Valid prediction for CodingQuarry_transcript_32489-T1
Valid prediction for Augustus_model.g31615.t1
Valid prediction for snap_scaffold_21-snap.723-T1
Valid prediction for GlimmerHMM_glimmerT_47427-T1
Valid prediction for Augustus_model.g31599.t1
Valid prediction for Augustus_model.g31608.t1
Valid prediction for snap_scaffold_21-snap.712-T1
Valid prediction for pasa_asmbl_27539.p1
Valid prediction for snap_scaffold_21-snap.699-T1
Couldn't classify 2368, 2506
Sorry, prediction pasa_asmbl_28205.p1 fails validation.
(ATG)	 AC	1778-1801	GT	GGG
(ATC)	 AG	2118-2227	GT	AAG
(GCG)	 AG	2368-2506	AG	CCA
-recovered pasa_asmbl_28205.p1, initial, 1778, 1801
-recovered pasa_asmbl_28205.p1, internal, 2118, 2227
Valid prediction for snap_scaffold_21-snap.722-T1
Valid prediction for Augustus_model.g31611.t1
Valid prediction for CodingQuarry_transcript_32484-T1
Valid prediction for snap_scaffold_21-snap.728-T1
Valid prediction for GlimmerHMM_glimmerT_47415-T1
Valid prediction for snap_scaffold_21-snap.734-T1
Valid prediction for GlimmerHMM_glimmerT_47436-T1
Couldn't classify 106413, 106538
Sorry, prediction pasa_asmbl_27536.p1 fails validation.
(GCT)	 AG	106413-106538	GT	TGG
(CTG)	 AG	106929-107065	GT	AAG
(GTA)	 AG	107314-107422	CT	GAC
-recovered pasa_asmbl_27536.p1, terminal, 107314, 107422
-recovered pasa_asmbl_27536.p1, internal, 106413, 106538
-recovered pasa_asmbl_27536.p1, internal, 106929, 107065
Valid prediction for GlimmerHMM_glimmerT_47424-T1
Valid prediction for GlimmerHMM_glimmerT_47431-T1
Valid prediction for CodingQuarry_transcript_32485-T1
Valid prediction for snap_scaffold_21-snap.716-T1
Valid prediction for snap_scaffold_21-snap.730-T1
Valid prediction for GlimmerHMM_glimmerT_47421-T1
Valid prediction for snap_scaffold_21-snap.700-T1
Valid prediction for GlimmerHMM_glimmerT_47420-T1
Valid prediction for snap_scaffold_21-snap.726-T1
Couldn't classify 142841, 142850
Sorry, prediction pasa_asmbl_27527.p1 fails validation.
(CTC)	 TC	142841-142850	GT	AGG
(GGG)	 AG	143127-143322	GT	AGG
(TTA)	 AG	144182-144368	GT	AGG
(GTA)	 AG	146118-146279	GT	ACG
(GCT)	 AG	147206-147302	GT	AGG
(TGG)	 AG	149110-149278	GT	AGG
(TCT)	 AG	149368-149500	GT	AGG
(CTG)	 AG	149718-149887	GT	AAG
(TTA)	 AG	150828-150831	TT	AAT
-recovered pasa_asmbl_27527.p1, terminal, 150828, 150831
-recovered pasa_asmbl_27527.p1, internal, 143127, 143322
-recovered pasa_asmbl_27527.p1, internal, 144182, 144368
-recovered pasa_asmbl_27527.p1, internal, 146118, 146279
-recovered pasa_asmbl_27527.p1, internal, 147206, 147302
-recovered pasa_asmbl_27527.p1, internal, 149110, 149278
-recovered pasa_asmbl_27527.p1, internal, 149368, 149500
-recovered pasa_asmbl_27527.p1, internal, 149718, 149887
Valid prediction for snap_scaffold_21-snap.702-T1
Valid prediction for snap_scaffold_21-snap.717-T1
Valid prediction for HiQ_model.g31603.t1
Valid prediction for GlimmerHMM_glimmerT_47428-T1
Valid prediction for Augustus_model.g31601.t1
Valid prediction for CodingQuarry_transcript_32486-T1
Valid prediction for GlimmerHMM_glimmerT_47423-T1
Valid prediction for Augustus_model.g31606.t1
Valid prediction for GlimmerHMM_glimmerT_47414-T1
Valid prediction for pasa_asmbl_27534.p1
Valid prediction for Augustus_model.g31609.t1
Valid prediction for snap_scaffold_21-snap.729-T1
Valid prediction for Augustus_model.g31613.t1
Valid prediction for snap_scaffold_21-snap.715-T1
Valid prediction for HiQ_model.g31602.t1
Couldn't classify 54817, 54976
Couldn't classify 58424, 58526
Sorry, prediction pasa_asmbl_27544.p1 fails validation.
(CAA)	 CG	54817-54976	GT	GAG
(ACT)	 AG	55443-55543	GT	AGG
(AGA)	 AG	55739-55811	GT	AGG
(ATA)	 AG	56341-56482	GT	AGG
(CGT)	 AG	58424-58526	GT	CGG
-recovered pasa_asmbl_27544.p1, internal, 55443, 55543
-recovered pasa_asmbl_27544.p1, internal, 55739, 55811
-recovered pasa_asmbl_27544.p1, internal, 56341, 56482
-recovered pasa_asmbl_27544.p1, internal, 58424, 58526
Valid prediction for GlimmerHMM_glimmerT_47426-T1
Valid prediction for Augustus_model.g31616.t1
Valid prediction for snap_scaffold_21-snap.718-T1
Valid prediction for Augustus_model.g31607.t1
Valid prediction for snap_scaffold_21-snap.709-T1
Valid prediction for CodingQuarry_transcript_32487-T1
Valid prediction for GlimmerHMM_glimmerT_47432-T1
Valid prediction for GlimmerHMM_glimmerT_47417-T1
Valid prediction for GlimmerHMM_glimmerT_47422-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6402, rend_intergenic: 3691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 8205, rend_intergenic: 7296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13332, rend_intergenic: 8302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34759, rend_intergenic: 31407  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85471, rend_intergenic: 74651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125470, rend_intergenic: 115947  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140430, rend_intergenic: 130767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146121, rend_intergenic: 142972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153894, rend_intergenic: 146630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164002, rend_intergenic: 156470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164617, rend_intergenic: 164311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 181712
-exon list size: 321


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.9    
2.2    
2.5    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
5.0    
5.3    
5.6    
5.9    
6.2    
6.5    
6.8    
7.1    
7.4    
7.7    
8.0    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.1    
11.5    
11.8    
12.1    
12.4    
12.7    
13.0    
13.3    
13.6    
13.9    
14.2    
14.6    
14.9    
15.2    
15.5    
15.8    
16.1    
16.4    
16.7    
17.0    
17.3    
17.6    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.4    
20.7    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
22.9    
23.2    
23.5    
23.8    
24.1    
24.5    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
30.0    
30.3    
30.7    
31.0    
31.3    
31.6    
31.9    
32.2    
32.5    
32.8    
33.1    
33.4    
33.7    
34.1    
34.4    
34.7    
35.0    
35.3    
35.6    
35.9    
36.2    
36.5    
36.8    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.3    
39.6    
39.9    
40.2    
40.6    
40.9    
41.2    
41.5    
41.8    
42.1    
42.4    
42.7    
43.0    
43.3    
43.7    
44.0    
44.3    
44.6    
44.9    
45.2    
45.5    
45.8    
46.1    
46.4    
46.7    
47.1    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.9    
53.3    
53.6    
53.9    
54.2    
54.5    
54.8    
55.1    
55.4    
55.7    
56.0    
56.3    
56.7    
57.0    
57.3    
57.6    
57.9    
58.2    
58.5    
58.8    
59.1    
59.4    
59.8    
60.1    
60.4    
60.7    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.2    
63.5    
63.8    
64.1    
64.4    
64.7    
65.0    
65.3    
65.6    
65.9    
66.3    
66.6    
66.9    
67.2    
67.5    
67.8    
68.1    
68.4    
68.7    
69.0    
69.3    
69.7    
70.0    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.5    
75.9    
76.2    
76.5    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.3    
79.6    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.4    
82.7    
83.0    
83.3    
83.6    
83.9    
84.2    
84.5    
84.8    
85.1    
85.4    
85.8    
86.1    
86.4    
86.7    
87.0    
87.3    
87.6    
87.9    
88.2    
88.5    
88.9    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
92.0    
92.3    
92.6    
92.9    
93.2    
93.5    
93.8    
94.1    
94.4    
94.7    
95.0    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.5    
97.8    
98.1    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 6402, rend_intergenic: 3691  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 8205, rend_intergenic: 7296  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 13332, rend_intergenic: 8302  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34759, rend_intergenic: 31407  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85471, rend_intergenic: 74651  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 125470, rend_intergenic: 115947  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140430, rend_intergenic: 130767  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146121, rend_intergenic: 142972  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 153894, rend_intergenic: 146630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164002, rend_intergenic: 156470  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164617, rend_intergenic: 164311  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support