-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_3469432-3636962

-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 GlimmerHMM_glimmerT_49182-T1
Valid prediction for GlimmerHMM_glimmerT_49199-T1
Valid prediction for Augustus_model.g32825.t1
Valid prediction for GlimmerHMM_glimmerT_49175-T1
Valid prediction for snap_scaffold_22-snap.644-T1
Valid prediction for GlimmerHMM_glimmerT_49203-T1
Valid prediction for GlimmerHMM_glimmerT_49192-T1
Valid prediction for Augustus_model.g32835.t1
Valid prediction for GlimmerHMM_glimmerT_49174-T1
Valid prediction for GlimmerHMM_glimmerT_49194-T1
Valid prediction for snap_scaffold_22-snap.629-T1
Valid prediction for Augustus_model.g32818.t1
Valid prediction for snap_scaffold_22-snap.646-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_49178-T1
Valid prediction for Augustus_model.g32828.t1
Valid prediction for snap_scaffold_22-snap.632-T1
Valid prediction for snap_scaffold_22-snap.637-T1
Valid prediction for snap_scaffold_22-snap.627-T1
Valid prediction for snap_scaffold_22-snap.641-T1
Valid prediction for HiQ_model.g32830.t1
Valid prediction for GlimmerHMM_glimmerT_49196-T1
Valid prediction for snap_scaffold_22-snap.616-T1
Valid prediction for snap_scaffold_22-snap.634-T1
Valid prediction for Augustus_model.g32838.t1
Valid prediction for snap_scaffold_22-snap.625-T1
Valid prediction for snap_scaffold_22-snap.606-T1
Valid prediction for Augustus_model.g32834.t1
Valid prediction for snap_scaffold_22-snap.623-T1
Valid prediction for snap_scaffold_22-snap.630-T1
Valid prediction for snap_scaffold_22-snap.611-T1
Valid prediction for GlimmerHMM_glimmerT_49201-T1
Valid prediction for GlimmerHMM_glimmerT_49177-T1
Valid prediction for GlimmerHMM_glimmerT_49190-T1
Valid prediction for Augustus_model.g32832.t1
Valid prediction for snap_scaffold_22-snap.639-T1
Valid prediction for GlimmerHMM_glimmerT_49176-T1
Valid prediction for GlimmerHMM_glimmerT_49187-T1
Valid prediction for snap_scaffold_22-snap.638-T1
Valid prediction for snap_scaffold_22-snap.620-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 GlimmerHMM_glimmerT_49200-T1
Valid prediction for GlimmerHMM_glimmerT_49188-T1
Valid prediction for GlimmerHMM_glimmerT_49205-T1
Valid prediction for GlimmerHMM_glimmerT_49197-T1
Valid prediction for GlimmerHMM_glimmerT_49195-T1
Valid prediction for Augustus_model.g32822.t1
Couldn't classify 136503, 136571
Sorry, prediction pasa_asmbl_29173.p1 fails validation.
(ACC)	 GC	136503-136571	GT	AGG
(GTG)	 AG	137417-137586	GT	TGG
(GCT)	 AG	137863-137980	GC	GAG
-recovered pasa_asmbl_29173.p1, terminal, 137863, 137980
-recovered pasa_asmbl_29173.p1, internal, 137417, 137586
-recovered pasa_asmbl_29173.p1, internal, 137863, 137980
Valid prediction for snap_scaffold_22-snap.609-T1
Valid prediction for GlimmerHMM_glimmerT_49191-T1
Valid prediction for GlimmerHMM_glimmerT_49193-T1
Valid prediction for snap_scaffold_22-snap.633-T1
Valid prediction for GlimmerHMM_glimmerT_49204-T1
Valid prediction for GlimmerHMM_glimmerT_49179-T1
Valid prediction for GlimmerHMM_glimmerT_49206-T1
Valid prediction for Augustus_model.g32836.t1
Valid prediction for HiQ_model.g32831.t1
Valid prediction for snap_scaffold_22-snap.617-T1
Valid prediction for snap_scaffold_22-snap.642-T1
Valid prediction for snap_scaffold_22-snap.628-T1
Valid prediction for GlimmerHMM_glimmerT_49186-T1
Valid prediction for GlimmerHMM_glimmerT_49202-T1
Valid prediction for snap_scaffold_22-snap.621-T1
Valid prediction for snap_scaffold_22-snap.607-T1
Valid prediction for snap_scaffold_22-snap.610-T1
Valid prediction for Augustus_model.g32826.t1
Valid prediction for snap_scaffold_22-snap.615-T1
Valid prediction for snap_scaffold_22-snap.619-T1
Valid prediction for GlimmerHMM_glimmerT_49189-T1
Valid prediction for Augustus_model.g32827.t1
Valid prediction for CodingQuarry_transcript_34123-T1
Valid prediction for GlimmerHMM_glimmerT_49180-T1
Valid prediction for Augustus_model.g32833.t1
Valid prediction for Augustus_model.g32821.t1
Valid prediction for Augustus_model.g32837.t1
Valid prediction for snap_scaffold_22-snap.626-T1
Valid prediction for snap_scaffold_22-snap.618-T1
Valid prediction for snap_scaffold_22-snap.624-T1
Valid prediction for Augustus_model.g32819.t1
Valid prediction for snap_scaffold_22-snap.643-T1
Valid prediction for GlimmerHMM_glimmerT_49185-T1
Couldn't classify 102755, 103008
Sorry, prediction pasa_asmbl_29175.p1 fails validation.
(TTG)	 GA	102755-103008	GT	AAG
(GAG)	 AG	103182-103311	GT	AGG
(CTG)	 AG	103386-103486	GT	TAG
(CTC)	 AG	103677-104045	GT	AAG
(TTT)	 AG	104156-104246	AA	AGA
-recovered pasa_asmbl_29175.p1, terminal, 104156, 104246
-recovered pasa_asmbl_29175.p1, internal, 103182, 103311
-recovered pasa_asmbl_29175.p1, internal, 103386, 103486
-recovered pasa_asmbl_29175.p1, internal, 103677, 104045
Valid prediction for Augustus_model.g32823.t1
Valid prediction for snap_scaffold_22-snap.631-T1
Valid prediction for GlimmerHMM_glimmerT_49184-T1
Valid prediction for Augustus_model.g32829.t1
Couldn't classify 131941, 132049
Sorry, prediction pasa_asmbl_29174.p1 fails validation.
(GAC)	 AG	131941-132049	GT	TGG
(CCC)	 AG	134441-134632	GT	AGG
(TGC)	 AG	136073-136098	GA	AAG
-recovered pasa_asmbl_29174.p1, terminal, 136073, 136098
-recovered pasa_asmbl_29174.p1, internal, 131941, 132049
-recovered pasa_asmbl_29174.p1, internal, 134441, 134632
Valid prediction for snap_scaffold_22-snap.612-T1
Valid prediction for snap_scaffold_22-snap.636-T1
Valid prediction for GlimmerHMM_glimmerT_49198-T1
Valid prediction for pasa_asmbl_29177.p1
Valid prediction for Augustus_model.g32824.t1
Valid prediction for GlimmerHMM_glimmerT_49183-T1
Valid prediction for GlimmerHMM_glimmerT_49181-T1
Valid prediction for snap_scaffold_22-snap.645-T1
Valid prediction for snap_scaffold_22-snap.622-T1
Valid prediction for snap_scaffold_22-snap.640-T1
Valid prediction for snap_scaffold_22-snap.613-T1
Valid prediction for snap_scaffold_22-snap.608-T1
Valid prediction for snap_scaffold_22-snap.635-T1
Valid prediction for Augustus_model.g32820.t1
Valid prediction for snap_scaffold_22-snap.614-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 43801, rend_intergenic: 38146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57148, rend_intergenic: 54713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74347, rend_intergenic: 71551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99869, rend_intergenic: 90501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110775, rend_intergenic: 107140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117663, rend_intergenic: 115424  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123655, rend_intergenic: 118779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127501, rend_intergenic: 124588  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138135, rend_intergenic: 137955  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146479, rend_intergenic: 140382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150782, rend_intergenic: 147973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155524, rend_intergenic: 151367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 167531
-exon list size: 306


building trellis

0.3    
0.6    
1.0    
1.3    
1.6    
1.9    
2.3    
2.6    
2.9    
3.2    
3.6    
3.9    
4.2    
4.5    
4.9    
5.2    
5.5    
5.8    
6.2    
6.5    
6.8    
7.1    
7.5    
7.8    
8.1    
8.4    
8.8    
9.1    
9.4    
9.7    
10.1    
10.4    
10.7    
11.0    
11.4    
11.7    
12.0    
12.3    
12.7    
13.0    
13.3    
13.6    
14.0    
14.3    
14.6    
14.9    
15.3    
15.6    
15.9    
16.2    
16.6    
16.9    
17.2    
17.5    
17.9    
18.2    
18.5    
18.8    
19.2    
19.5    
19.8    
20.1    
20.5    
20.8    
21.1    
21.4    
21.8    
22.1    
22.4    
22.7    
23.1    
23.4    
23.7    
24.0    
24.4    
24.7    
25.0    
25.3    
25.6    
26.0    
26.3    
26.6    
26.9    
27.3    
27.6    
27.9    
28.2    
28.6    
28.9    
29.2    
29.5    
29.9    
30.2    
30.5    
30.8    
31.2    
31.5    
31.8    
32.1    
32.5    
32.8    
33.1    
33.4    
33.8    
34.1    
34.4    
34.7    
35.1    
35.4    
35.7    
36.0    
36.4    
36.7    
37.0    
37.3    
37.7    
38.0    
38.3    
38.6    
39.0    
39.3    
39.6    
39.9    
40.3    
40.6    
40.9    
41.2    
41.6    
41.9    
42.2    
42.5    
42.9    
43.2    
43.5    
43.8    
44.2    
44.5    
44.8    
45.1    
45.5    
45.8    
46.1    
46.4    
46.8    
47.1    
47.4    
47.7    
48.1    
48.4    
48.7    
49.0    
49.4    
49.7    
50.0    
50.3    
50.6    
51.0    
51.3    
51.6    
51.9    
52.3    
52.6    
52.9    
53.2    
53.6    
53.9    
54.2    
54.5    
54.9    
55.2    
55.5    
55.8    
56.2    
56.5    
56.8    
57.1    
57.5    
57.8    
58.1    
58.4    
58.8    
59.1    
59.4    
59.7    
60.1    
60.4    
60.7    
61.0    
61.4    
61.7    
62.0    
62.3    
62.7    
63.0    
63.3    
63.6    
64.0    
64.3    
64.6    
64.9    
65.3    
65.6    
65.9    
66.2    
66.6    
66.9    
67.2    
67.5    
67.9    
68.2    
68.5    
68.8    
69.2    
69.5    
69.8    
70.1    
70.5    
70.8    
71.1    
71.4    
71.8    
72.1    
72.4    
72.7    
73.1    
73.4    
73.7    
74.0    
74.4    
74.7    
75.0    
75.3    
75.6    
76.0    
76.3    
76.6    
76.9    
77.3    
77.6    
77.9    
78.2    
78.6    
78.9    
79.2    
79.5    
79.9    
80.2    
80.5    
80.8    
81.2    
81.5    
81.8    
82.1    
82.5    
82.8    
83.1    
83.4    
83.8    
84.1    
84.4    
84.7    
85.1    
85.4    
85.7    
86.0    
86.4    
86.7    
87.0    
87.3    
87.7    
88.0    
88.3    
88.6    
89.0    
89.3    
89.6    
89.9    
90.3    
90.6    
90.9    
91.2    
91.6    
91.9    
92.2    
92.5    
92.9    
93.2    
93.5    
93.8    
94.2    
94.5    
94.8    
95.1    
95.5    
95.8    
96.1    
96.4    
96.8    
97.1    
97.4    
97.7    
98.1    
98.4    
98.7    
99.0    
99.4    
99.7    
-found 34 predictions from path traversal
Error with prediction: snap lend_intergenic: 43801, rend_intergenic: 38146  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57148, rend_intergenic: 54713  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74347, rend_intergenic: 71551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 99869, rend_intergenic: 90501  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 110775, rend_intergenic: 107140  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 117663, rend_intergenic: 115424  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 123655, rend_intergenic: 118779  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 127501, rend_intergenic: 124588  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 138135, rend_intergenic: 137955  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 146479, rend_intergenic: 140382  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150782, rend_intergenic: 147973  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 155524, rend_intergenic: 151367  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 24 predictions persist after filtering for low support