-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_7/scaffold_7_5961054-6117833

-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 HiQ_model.g11708.t1
Valid prediction for snap_scaffold_7-snap.1244-T1
Valid prediction for GlimmerHMM_glimmerT_17492-T1
Valid prediction for snap_scaffold_7-snap.1227-T1
Valid prediction for Augustus_model.g11711.t1
Valid prediction for snap_scaffold_7-snap.1225-T1
Valid prediction for GlimmerHMM_glimmerT_17470-T1
Valid prediction for Augustus_model.g11702.t1
Valid prediction for GlimmerHMM_glimmerT_17487-T1
Couldn't classify 147178, 147237
Sorry, prediction pasa_asmbl_49841.p1 fails validation.
(GAG)	 TG	147178-147237	GT	AGG
(TAC)	 AG	148023-148171	GT	AGG
(AGC)	 AG	149231-149401	GT	ATG
(GAT)	 AG	149619-149815	GT	GGG
(ACT)	 AG	149922-150065	GT	GGG
(AGG)	 AG	150611-150738	GT	AGG
(GAC)	 AG	151622-151731	GT	AAG
(GGA)	 AG	152409-152518	GT	AGG
(GTA)	 AG	152629-152732	AG	AGA
-recovered pasa_asmbl_49841.p1, terminal, 151622, 151731
-recovered pasa_asmbl_49841.p1, terminal, 152629, 152732
-recovered pasa_asmbl_49841.p1, internal, 148023, 148171
-recovered pasa_asmbl_49841.p1, internal, 149231, 149401
-recovered pasa_asmbl_49841.p1, internal, 149619, 149815
-recovered pasa_asmbl_49841.p1, internal, 149922, 150065
-recovered pasa_asmbl_49841.p1, internal, 150611, 150738
-recovered pasa_asmbl_49841.p1, internal, 151622, 151731
-recovered pasa_asmbl_49841.p1, internal, 152409, 152518
Valid prediction for snap_scaffold_7-snap.1231-T1
Valid prediction for GlimmerHMM_glimmerT_17482-T1
Valid prediction for GlimmerHMM_glimmerT_17479-T1
Valid prediction for snap_scaffold_7-snap.1248-T1
Valid prediction for snap_scaffold_7-snap.1254-T1
Valid prediction for CodingQuarry_transcript_57529-T1
Valid prediction for snap_scaffold_7-snap.1258-T1
Valid prediction for Augustus_model.g11701.t1
Valid prediction for Augustus_model.g11706.t1
Valid prediction for snap_scaffold_7-snap.1251-T1
Valid prediction for snap_scaffold_7-snap.1245-T1
Valid prediction for snap_scaffold_7-snap.1240-T1
Valid prediction for Augustus_model.g11700.t1
Valid prediction for GlimmerHMM_glimmerT_17485-T1
Valid prediction for GlimmerHMM_glimmerT_17474-T1
Valid prediction for snap_scaffold_7-snap.1235-T1
Valid prediction for pasa_asmbl_49834.p1
Valid prediction for snap_scaffold_7-snap.1250-T1
Valid prediction for snap_scaffold_7-snap.1255-T1
Valid prediction for GlimmerHMM_glimmerT_17478-T1
Valid prediction for snap_scaffold_7-snap.1261-T1
Valid prediction for snap_scaffold_7-snap.1242-T1
Valid prediction for GlimmerHMM_glimmerT_17477-T1
Valid prediction for GlimmerHMM_glimmerT_17483-T1
Valid prediction for HiQ_model.g11704.t1
Valid prediction for GlimmerHMM_glimmerT_17486-T1
Valid prediction for GlimmerHMM_glimmerT_17480-T1
Valid prediction for snap_scaffold_7-snap.1256-T1
Couldn't classify 136259, 136359
Couldn't classify 137766, 137898
Sorry, prediction pasa_asmbl_49839.p1 fails validation.
(GAG)	 GG	136259-136359	GT	AGG
(GGA)	 AG	137257-137389	GT	GGG
(GAC)	 AG	137552-137679	GT	AGG
(AGT)	 AG	137766-137898	AG	GGA
-recovered pasa_asmbl_49839.p1, internal, 137257, 137389
-recovered pasa_asmbl_49839.p1, internal, 137552, 137679
Valid prediction for snap_scaffold_7-snap.1232-T1
Valid prediction for CodingQuarry_transcript_57528-T1
Valid prediction for snap_scaffold_7-snap.1233-T1
Valid prediction for Augustus_model.g11703.t1
Valid prediction for GlimmerHMM_glimmerT_17491-T1
Valid prediction for GlimmerHMM_glimmerT_17469-T1
Valid prediction for CodingQuarry_transcript_57525-T1
Valid prediction for snap_scaffold_7-snap.1237-T1
Valid prediction for Augustus_model.g11698.t1
Valid prediction for Augustus_model.g11709.t1
Couldn't classify 145742, 145768
Couldn't classify 146592, 146727
Sorry, prediction pasa_asmbl_49840.p1 fails validation.
(CTG)	 GG	145742-145768	GT	AGG
(TAT)	 AG	146346-146479	GT	AGG
(CTC)	 AG	146592-146727	AC	CCA
-recovered pasa_asmbl_49840.p1, internal, 146346, 146479

-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 GlimmerHMM_glimmerT_17488-T1
Valid prediction for Augustus_model.g11697.t1
Valid prediction for snap_scaffold_7-snap.1230-T1
Valid prediction for Augustus_model.g11695.t1
Valid prediction for snap_scaffold_7-snap.1260-T1
Sorry, intron length (3) is less than minimum required (10)
Couldn't classify 75160, 75161
Sorry, prediction CodingQuarry_transcript_57527-T1 fails validation.
(ATG)	 AC	72284-72334	GT	AGG
(CGC)	 AG	74428-74494	GT	GTG
(AGT)	 AG	75160-75161	TT	AGT
-recovered CodingQuarry_transcript_57527-T1, initial, 72284, 72334
-recovered CodingQuarry_transcript_57527-T1, internal, 74428, 74494
Valid prediction for snap_scaffold_7-snap.1241-T1
Valid prediction for snap_scaffold_7-snap.1228-T1
Valid prediction for snap_scaffold_7-snap.1249-T1
Valid prediction for GlimmerHMM_glimmerT_17473-T1
Valid prediction for Augustus_model.g11696.t1
Valid prediction for pasa_asmbl_50909.p1
Valid prediction for snap_scaffold_7-snap.1224-T1
Valid prediction for snap_scaffold_7-snap.1259-T1
Valid prediction for snap_scaffold_7-snap.1246-T1
Valid prediction for GlimmerHMM_glimmerT_17489-T1
Valid prediction for snap_scaffold_7-snap.1234-T1
Valid prediction for snap_scaffold_7-snap.1243-T1
Valid prediction for snap_scaffold_7-snap.1253-T1
Valid prediction for GlimmerHMM_glimmerT_17472-T1
Valid prediction for snap_scaffold_7-snap.1257-T1
Valid prediction for GlimmerHMM_glimmerT_17471-T1
Valid prediction for Augustus_model.g11710.t1
Valid prediction for Augustus_model.g11707.t1
Couldn't classify 53054, 53257
Sorry, prediction pasa_asmbl_50913.p1 fails validation.
(ATG)	 AG	50165-50401	GT	AGG
(GCC)	 AG	53054-53257	AG	TGA
-recovered pasa_asmbl_50913.p1, initial, 50165, 50401
-recovered pasa_asmbl_50913.p1, internal, 50165, 50401
Valid prediction for snap_scaffold_7-snap.1238-T1
Valid prediction for snap_scaffold_7-snap.1236-T1
Valid prediction for snap_scaffold_7-snap.1226-T1
Valid prediction for snap_scaffold_7-snap.1239-T1
Valid prediction for HiQ_model.g11705.t1
Valid prediction for GlimmerHMM_glimmerT_17476-T1
Valid prediction for GlimmerHMM_glimmerT_17481-T1
Valid prediction for snap_scaffold_7-snap.1247-T1
Valid prediction for Augustus_model.g11699.t1
Valid prediction for GlimmerHMM_glimmerT_17475-T1
Valid prediction for GlimmerHMM_glimmerT_17490-T1
Valid prediction for CodingQuarry_transcript_57526-T1
Valid prediction for snap_scaffold_7-snap.1252-T1
Valid prediction for GlimmerHMM_glimmerT_17484-T1
Valid prediction for snap_scaffold_7-snap.1229-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 2848, rend_intergenic: 1829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10537, rend_intergenic: 6627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16338, rend_intergenic: 11700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36335, rend_intergenic: 25963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45147, rend_intergenic: 38628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51285, rend_intergenic: 47588  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66153, rend_intergenic: 60830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150085, rend_intergenic: 134879  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 156780
-exon list size: 342


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.7    
2.0    
2.3    
2.6    
2.9    
3.2    
3.5    
3.8    
4.1    
4.4    
4.7    
4.9    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
7.8    
8.1    
8.4    
8.7    
9.0    
9.3    
9.6    
9.9    
10.2    
10.5    
10.8    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.4    
13.7    
14.0    
14.2    
14.5    
14.8    
15.1    
15.4    
15.7    
16.0    
16.3    
16.6    
16.9    
17.2    
17.4    
17.7    
18.0    
18.3    
18.6    
18.9    
19.2    
19.5    
19.8    
20.1    
20.3    
20.6    
20.9    
21.2    
21.5    
21.8    
22.1    
22.4    
22.7    
23.0    
23.3    
23.5    
23.8    
24.1    
24.4    
24.7    
25.0    
25.3    
25.6    
25.9    
26.2    
26.5    
26.7    
27.0    
27.3    
27.6    
27.9    
28.2    
28.5    
28.8    
29.1    
29.4    
29.7    
29.9    
30.2    
30.5    
30.8    
31.1    
31.4    
31.7    
32.0    
32.3    
32.6    
32.8    
33.1    
33.4    
33.7    
34.0    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.0    
36.3    
36.6    
36.9    
37.2    
37.5    
37.8    
38.1    
38.4    
38.7    
39.0    
39.2    
39.5    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.4    
42.7    
43.0    
43.3    
43.6    
43.9    
44.2    
44.5    
44.8    
45.1    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.3    
48.5    
48.8    
49.1    
49.4    
49.7    
50.0    
50.3    
50.6    
50.9    
51.2    
51.5    
51.7    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
54.9    
55.2    
55.5    
55.8    
56.1    
56.4    
56.7    
57.0    
57.3    
57.6    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.5    
60.8    
61.0    
61.3    
61.6    
61.9    
62.2    
62.5    
62.8    
63.1    
63.4    
63.7    
64.0    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.0    
66.3    
66.6    
66.9    
67.2    
67.4    
67.7    
68.0    
68.3    
68.6    
68.9    
69.2    
69.5    
69.8    
70.1    
70.3    
70.6    
70.9    
71.2    
71.5    
71.8    
72.1    
72.4    
72.7    
73.0    
73.3    
73.5    
73.8    
74.1    
74.4    
74.7    
75.0    
75.3    
75.6    
75.9    
76.2    
76.5    
76.7    
77.0    
77.3    
77.6    
77.9    
78.2    
78.5    
78.8    
79.1    
79.4    
79.7    
79.9    
80.2    
80.5    
80.8    
81.1    
81.4    
81.7    
82.0    
82.3    
82.6    
82.8    
83.1    
83.4    
83.7    
84.0    
84.3    
84.6    
84.9    
85.2    
85.5    
85.8    
86.0    
86.3    
86.6    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.2    
89.5    
89.8    
90.1    
90.4    
90.7    
91.0    
91.3    
91.6    
91.9    
92.2    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.1    
95.3    
95.6    
95.9    
96.2    
96.5    
96.8    
97.1    
97.4    
97.7    
98.0    
98.3    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 26 predictions from path traversal
Error with prediction: snap lend_intergenic: 2848, rend_intergenic: 1829  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 10537, rend_intergenic: 6627  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 16338, rend_intergenic: 11700  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36335, rend_intergenic: 25963  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45147, rend_intergenic: 38628  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 51285, rend_intergenic: 47588  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 66153, rend_intergenic: 60830  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150085, rend_intergenic: 134879  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