-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_18/scaffold_18_5930310-6136629

-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: +)Couldn't classify 72154, 72271
Sorry, prediction pasa_asmbl_20654.p1 fails validation.
(AAA)	 GG	72154-72271	GT	CGG
(GAA)	 AG	72458-72586	GT	AGG
(GAG)	 AG	72719-72892	GT	CGG
(GGG)	 AG	73304-73465	GT	CGG
(GGA)	 AG	73595-73798	GT	AGG
(GTT)	 AG	74160-74312	GT	AGG
(GAA)	 AG	74560-74682	GT	AGG
(GGA)	 AG	74927-75226	GT	GGG
(GCG)	 AG	75821-76090	GT	TGG
(CTG)	 AG	76374-76511	GT	TGG
(GCG)	 AG	76802-76917	GT	AGG
(GAG)	 AG	77455-77587	GT	CGG
(ACC)	 AG	77905-78081	GT	CGG
(GCG)	 AG	78572-78790	GT	GGG
(GAG)	 AG	79004-79210	GT	AGG
(GCA)	 AG	79463-79650	AA	GAA
-recovered pasa_asmbl_20654.p1, terminal, 79463, 79650
-recovered pasa_asmbl_20654.p1, internal, 72458, 72586
-recovered pasa_asmbl_20654.p1, internal, 72719, 72892
-recovered pasa_asmbl_20654.p1, internal, 73304, 73465
-recovered pasa_asmbl_20654.p1, internal, 73595, 73798
-recovered pasa_asmbl_20654.p1, internal, 74160, 74312
-recovered pasa_asmbl_20654.p1, internal, 74560, 74682
-recovered pasa_asmbl_20654.p1, internal, 74927, 75226
-recovered pasa_asmbl_20654.p1, internal, 75821, 76090
-recovered pasa_asmbl_20654.p1, internal, 76374, 76511
-recovered pasa_asmbl_20654.p1, internal, 76802, 76917
-recovered pasa_asmbl_20654.p1, internal, 77455, 77587
-recovered pasa_asmbl_20654.p1, internal, 77905, 78081
-recovered pasa_asmbl_20654.p1, internal, 78572, 78790
-recovered pasa_asmbl_20654.p1, internal, 79004, 79210
Valid prediction for GlimmerHMM_glimmerT_42439-T1
Valid prediction for GlimmerHMM_glimmerT_42436-T1
Valid prediction for snap_scaffold_18-snap.1248-T1
Valid prediction for GlimmerHMM_glimmerT_42428-T1
Valid prediction for Augustus_model.g28277.t1
Couldn't classify 52892, 53198
Couldn't classify 63303, 63800
Sorry, prediction pasa_asmbl_20642.p1 fails validation.
(TCC)	 CT	52892-53198	GT	AGG
(GCA)	 AG	53462-53580	GT	AGG
(GCC)	 AG	53734-53811	GT	AGG
(GTG)	 AG	53950-54112	GT	AGG
(GCG)	 AG	54265-54465	GT	GGG
(CCT)	 AG	56932-57069	GT	GAG
(AGG)	 AG	57178-57304	GT	AGG
(CCC)	 AG	57827-57963	GT	GGG
(GGT)	 AG	58434-58627	GT	AGG
(GTG)	 AG	58919-59176	GT	GGG
(GTG)	 AG	59303-59426	GT	AGG
(GTG)	 AG	59620-59780	GT	AGG
(GAA)	 AG	60015-60105	GT	AGG
(GTG)	 AG	60353-60522	GT	AGG
(GGA)	 AG	60815-60932	GT	CAG
(AGG)	 AG	61392-61654	GT	AGG
(GTG)	 AG	63303-63800	GG	ACG
-recovered pasa_asmbl_20642.p1, internal, 53462, 53580
-recovered pasa_asmbl_20642.p1, internal, 53734, 53811
-recovered pasa_asmbl_20642.p1, internal, 53950, 54112
-recovered pasa_asmbl_20642.p1, internal, 54265, 54465
-recovered pasa_asmbl_20642.p1, internal, 56932, 57069
-recovered pasa_asmbl_20642.p1, internal, 57178, 57304
-recovered pasa_asmbl_20642.p1, internal, 57827, 57963
-recovered pasa_asmbl_20642.p1, internal, 58434, 58627
-recovered pasa_asmbl_20642.p1, internal, 58919, 59176
-recovered pasa_asmbl_20642.p1, internal, 59303, 59426
-recovered pasa_asmbl_20642.p1, internal, 59620, 59780
-recovered pasa_asmbl_20642.p1, internal, 60015, 60105
-recovered pasa_asmbl_20642.p1, internal, 60353, 60522
-recovered pasa_asmbl_20642.p1, internal, 60815, 60932
-recovered pasa_asmbl_20642.p1, internal, 61392, 61654
Couldn't classify 43594, 43852
Sorry, prediction pasa_asmbl_20632.p2 fails validation.
(CTG)	 CT	43594-43852	GT	TGG
(AGT)	 AG	45559-45608	GG	GAG
-recovered pasa_asmbl_20632.p2, terminal, 45559, 45608
Valid prediction for snap_scaffold_18-snap.1244-T1
Valid prediction for Augustus_model.g28264.t1
Valid prediction for GlimmerHMM_glimmerT_42427-T1
Valid prediction for snap_scaffold_18-snap.1273-T1
Valid prediction for snap_scaffold_18-snap.1277-T1
Valid prediction for HiQ_model.g28268.t1
Valid prediction for GlimmerHMM_glimmerT_42449-T1
Valid prediction for snap_scaffold_18-snap.1251-T1
Valid prediction for GlimmerHMM_glimmerT_42424-T1
Valid prediction for Augustus_model.g28267.t1
Valid prediction for snap_scaffold_18-snap.1256-T1
Valid prediction for snap_scaffold_18-snap.1245-T1
Valid prediction for snap_scaffold_18-snap.1259-T1
Valid prediction for snap_scaffold_18-snap.1279-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_42437-T1
Valid prediction for snap_scaffold_18-snap.1269-T1
Valid prediction for GlimmerHMM_glimmerT_42429-T1
Valid prediction for Augustus_model.g28278.t1
Valid prediction for snap_scaffold_18-snap.1254-T1
Valid prediction for Augustus_model.g28281.t1
Valid prediction for Augustus_model.g28265.t1
Valid prediction for snap_scaffold_18-snap.1268-T1
Couldn't classify 71880, 71981
Sorry, prediction pasa_asmbl_20652.p3 fails validation.
(ATG)	 AC	70279-70390	GT	AGG
(TAT)	 AG	70493-70516	GT	GGG
(GTG)	 AG	70657-70904	GT	TGG
(GCC)	 AG	71880-71981	GA	GTG
-recovered pasa_asmbl_20652.p3, initial, 70279, 70390
-recovered pasa_asmbl_20652.p3, internal, 70493, 70516
-recovered pasa_asmbl_20652.p3, internal, 70657, 70904
Couldn't classify 64584, 64934
Sorry, prediction pasa_asmbl_20649.p1 fails validation.
(TCT)	 TC	64584-64934	TC	GAT
Valid prediction for snap_scaffold_18-snap.1283-T1
Valid prediction for snap_scaffold_18-snap.1257-T1
Valid prediction for GlimmerHMM_glimmerT_42422-T1
Valid prediction for snap_scaffold_18-snap.1267-T1
Valid prediction for GlimmerHMM_glimmerT_42426-T1
Valid prediction for snap_scaffold_18-snap.1265-T1
Valid prediction for snap_scaffold_18-snap.1255-T1
Valid prediction for GlimmerHMM_glimmerT_42444-T1
Valid prediction for snap_scaffold_18-snap.1282-T1
Valid prediction for snap_scaffold_18-snap.1276-T1
Valid prediction for snap_scaffold_18-snap.1270-T1
Valid prediction for GlimmerHMM_glimmerT_42430-T1
Valid prediction for snap_scaffold_18-snap.1287-T1
Valid prediction for Augustus_model.g28279.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_18-snap.1266-T1
Valid prediction for snap_scaffold_18-snap.1284-T1
Valid prediction for snap_scaffold_18-snap.1261-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g28280.t1
Valid prediction for snap_scaffold_18-snap.1285-T1
Valid prediction for snap_scaffold_18-snap.1253-T1
Valid prediction for GlimmerHMM_glimmerT_42425-T1
Valid prediction for snap_scaffold_18-snap.1278-T1
Valid prediction for snap_scaffold_18-snap.1264-T1
Valid prediction for snap_scaffold_18-snap.1286-T1
Valid prediction for snap_scaffold_18-snap.1260-T1
Valid prediction for snap_scaffold_18-snap.1288-T1
Valid prediction for GlimmerHMM_glimmerT_42448-T1
Valid prediction for snap_scaffold_18-snap.1280-T1
Valid prediction for snap_scaffold_18-snap.1249-T1
Valid prediction for Augustus_model.g28273.t1
Valid prediction for snap_scaffold_18-snap.1250-T1
Valid prediction for Augustus_model.g28274.t1
Valid prediction for snap_scaffold_18-snap.1272-T1
Valid prediction for Augustus_model.g28266.t1
Valid prediction for snap_scaffold_18-snap.1247-T1
Valid prediction for Augustus_model.g28269.t1
Valid prediction for snap_scaffold_18-snap.1252-T1
Valid prediction for GlimmerHMM_glimmerT_42435-T1
Valid prediction for GlimmerHMM_glimmerT_42431-T1
Valid prediction for snap_scaffold_18-snap.1281-T1
Valid prediction for GlimmerHMM_glimmerT_42447-T1
Valid prediction for snap_scaffold_18-snap.1274-T1
Valid prediction for GlimmerHMM_glimmerT_42442-T1
Valid prediction for snap_scaffold_18-snap.1263-T1
Valid prediction for GlimmerHMM_glimmerT_42432-T1
Valid prediction for Augustus_model.g28272.t1
Valid prediction for GlimmerHMM_glimmerT_42446-T1
Valid prediction for snap_scaffold_18-snap.1271-T1
Valid prediction for snap_scaffold_18-snap.1246-T1
Valid prediction for GlimmerHMM_glimmerT_42441-T1
Valid prediction for Augustus_model.g28271.t1
Valid prediction for Augustus_model.g28275.t1
Valid prediction for Augustus_model.g28270.t1
Valid prediction for snap_scaffold_18-snap.1262-T1
Valid prediction for GlimmerHMM_glimmerT_42440-T1
Couldn't classify 171379, 171690
Sorry, prediction pasa_asmbl_20629.p1 fails validation.
(ATG)	 AG	171379-171690	GA	TAG
Valid prediction for GlimmerHMM_glimmerT_42433-T1
Valid prediction for GlimmerHMM_glimmerT_42423-T1
Valid prediction for GlimmerHMM_glimmerT_42443-T1
Valid prediction for GlimmerHMM_glimmerT_42445-T1
Valid prediction for snap_scaffold_18-snap.1258-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_42438-T1
Valid prediction for GlimmerHMM_glimmerT_42434-T1
Valid prediction for Augustus_model.g28276.t1
Valid prediction for snap_scaffold_18-snap.1275-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 15383, rend_intergenic: 11822  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19089, rend_intergenic: 16787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52398, rend_intergenic: 32719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60994, rend_intergenic: 52960  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79650, rend_intergenic: 62233  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89094, rend_intergenic: 83863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97595, rend_intergenic: 91138  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106933, rend_intergenic: 101089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123291, rend_intergenic: 112405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141240, rend_intergenic: 125427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148944, rend_intergenic: 143392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165619, rend_intergenic: 151174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194938, rend_intergenic: 177555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 205450, rend_intergenic: 198193  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 206320
-exon list size: 457


building trellis

0.2    
0.4    
0.7    
0.9    
1.1    
1.3    
1.5    
1.7    
2.0    
2.2    
2.4    
2.6    
2.8    
3.1    
3.3    
3.5    
3.7    
3.9    
4.1    
4.4    
4.6    
4.8    
5.0    
5.2    
5.4    
5.7    
5.9    
6.1    
6.3    
6.5    
6.8    
7.0    
7.2    
7.4    
7.6    
7.8    
8.1    
8.3    
8.5    
8.7    
8.9    
9.2    
9.4    
9.6    
9.8    
10.0    
10.2    
10.5    
10.7    
10.9    
11.1    
11.3    
11.5    
11.8    
12.0    
12.2    
12.4    
12.6    
12.9    
13.1    
13.3    
13.5    
13.7    
13.9    
14.2    
14.4    
14.6    
14.8    
15.0    
15.3    
15.5    
15.7    
15.9    
16.1    
16.3    
16.6    
16.8    
17.0    
17.2    
17.4    
17.6    
17.9    
18.1    
18.3    
18.5    
18.7    
19.0    
19.2    
19.4    
19.6    
19.8    
20.0    
20.3    
20.5    
20.7    
20.9    
21.1    
21.4    
21.6    
21.8    
22.0    
22.2    
22.4    
22.7    
22.9    
23.1    
23.3    
23.5    
23.7    
24.0    
24.2    
24.4    
24.6    
24.8    
25.1    
25.3    
25.5    
25.7    
25.9    
26.1    
26.4    
26.6    
26.8    
27.0    
27.2    
27.5    
27.7    
27.9    
28.1    
28.3    
28.5    
28.8    
29.0    
29.2    
29.4    
29.6    
29.8    
30.1    
30.3    
30.5    
30.7    
30.9    
31.2    
31.4    
31.6    
31.8    
32.0    
32.2    
32.5    
32.7    
32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.2    
34.4    
34.6    
34.9    
35.1    
35.3    
35.5    
35.7    
35.9    
36.2    
36.4    
36.6    
36.8    
37.0    
37.3    
37.5    
37.7    
37.9    
38.1    
38.3    
38.6    
38.8    
39.0    
39.2    
39.4    
39.7    
39.9    
40.1    
40.3    
40.5    
40.7    
41.0    
41.2    
41.4    
41.6    
41.8    
42.0    
42.3    
42.5    
42.7    
42.9    
43.1    
43.4    
43.6    
43.8    
44.0    
44.2    
44.4    
44.7    
44.9    
45.1    
45.3    
45.5    
45.8    
46.0    
46.2    
46.4    
46.6    
46.8    
47.1    
47.3    
47.5    
47.7    
47.9    
48.1    
48.4    
48.6    
48.8    
49.0    
49.2    
49.5    
49.7    
49.9    
50.1    
50.3    
50.5    
50.8    
51.0    
51.2    
51.4    
51.6    
51.9    
52.1    
52.3    
52.5    
52.7    
52.9    
53.2    
53.4    
53.6    
53.8    
54.0    
54.2    
54.5    
54.7    
54.9    
55.1    
55.3    
55.6    
55.8    
56.0    
56.2    
56.4    
56.6    
56.9    
57.1    
57.3    
57.5    
57.7    
58.0    
58.2    
58.4    
58.6    
58.8    
59.0    
59.3    
59.5    
59.7    
59.9    
60.1    
60.3    
60.6    
60.8    
61.0    
61.2    
61.4    
61.7    
61.9    
62.1    
62.3    
62.5    
62.7    
63.0    
63.2    
63.4    
63.6    
63.8    
64.1    
64.3    
64.5    
64.7    
64.9    
65.1    
65.4    
65.6    
65.8    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
67.3    
67.5    
67.8    
68.0    
68.2    
68.4    
68.6    
68.8    
69.1    
69.3    
69.5    
69.7    
69.9    
70.2    
70.4    
70.6    
70.8    
71.0    
71.2    
71.5    
71.7    
71.9    
72.1    
72.3    
72.5    
72.8    
73.0    
73.2    
73.4    
73.6    
73.9    
74.1    
74.3    
74.5    
74.7    
74.9    
75.2    
75.4    
75.6    
75.8    
76.0    
76.3    
76.5    
76.7    
76.9    
77.1    
77.3    
77.6    
77.8    
78.0    
78.2    
78.4    
78.6    
78.9    
79.1    
79.3    
79.5    
79.7    
80.0    
80.2    
80.4    
80.6    
80.8    
81.0    
81.3    
81.5    
81.7    
81.9    
82.1    
82.4    
82.6    
82.8    
83.0    
83.2    
83.4    
83.7    
83.9    
84.1    
84.3    
84.5    
84.7    
85.0    
85.2    
85.4    
85.6    
85.8    
86.1    
86.3    
86.5    
86.7    
86.9    
87.1    
87.4    
87.6    
87.8    
88.0    
88.2    
88.5    
88.7    
88.9    
89.1    
89.3    
89.5    
89.8    
90.0    
90.2    
90.4    
90.6    
90.8    
91.1    
91.3    
91.5    
91.7    
91.9    
92.2    
92.4    
92.6    
92.8    
93.0    
93.2    
93.5    
93.7    
93.9    
94.1    
94.3    
94.6    
94.8    
95.0    
95.2    
95.4    
95.6    
95.9    
96.1    
96.3    
96.5    
96.7    
96.9    
97.2    
97.4    
97.6    
97.8    
98.0    
98.3    
98.5    
98.7    
98.9    
99.1    
99.3    
99.6    
99.8    
-found 32 predictions from path traversal
Error with prediction: snap lend_intergenic: 15383, rend_intergenic: 11822  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 19089, rend_intergenic: 16787  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 52398, rend_intergenic: 32719  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 60994, rend_intergenic: 52960  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79650, rend_intergenic: 62233  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 89094, rend_intergenic: 83863  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 97595, rend_intergenic: 91138  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 106933, rend_intergenic: 101089  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123291, rend_intergenic: 112405  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 141240, rend_intergenic: 125427  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 148944, rend_intergenic: 143392  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 165619, rend_intergenic: 151174  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 194938, rend_intergenic: 177555  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 205450, rend_intergenic: 198193  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