-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_1/scaffold_1_10643348-10845996

-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_1-snap.1837-T1
Valid prediction for GlimmerHMM_glimmerT_1423-T1
Valid prediction for snap_scaffold_1-snap.1846-T1
Valid prediction for snap_scaffold_1-snap.1850-T1
Couldn't classify 194867, 194884
Sorry, prediction pasa_asmbl_2028.p1 fails validation.
(GTT)	 CT	194867-194884	GT	AGG
(CTC)	 AG	195061-195211	GT	CGG
(AGA)	 AG	195393-195510	GT	AGG
(TGC)	 AG	195607-195682	GT	CTG
(GCG)	 AG	195805-195945	GT	AGG
(GAG)	 AG	196060-196674	TA	GAT
-recovered pasa_asmbl_2028.p1, terminal, 196060, 196674
-recovered pasa_asmbl_2028.p1, internal, 195061, 195211
-recovered pasa_asmbl_2028.p1, internal, 195393, 195510
-recovered pasa_asmbl_2028.p1, internal, 195607, 195682
-recovered pasa_asmbl_2028.p1, internal, 195805, 195945
Valid prediction for Augustus_model.g1056.t1
Valid prediction for Augustus_model.g1046.t1
Valid prediction for GlimmerHMM_glimmerT_1443-T1
Valid prediction for snap_scaffold_1-snap.1827-T1
Valid prediction for snap_scaffold_1-snap.1839-T1
Valid prediction for snap_scaffold_1-snap.1820-T1
Valid prediction for snap_scaffold_1-snap.1828-T1
Valid prediction for GlimmerHMM_glimmerT_1442-T1
Valid prediction for GlimmerHMM_glimmerT_1434-T1
Couldn't classify 185529, 185723
Sorry, prediction pasa_asmbl_2769.p1 fails validation.
(ATG)	 CG	185272-185412	GT	AGG
(ATC)	 AG	185529-185723	GC	GTG
-recovered pasa_asmbl_2769.p1, initial, 185272, 185412
-recovered pasa_asmbl_2769.p1, internal, 185529, 185723
Valid prediction for GlimmerHMM_glimmerT_1444-T1
Valid prediction for snap_scaffold_1-snap.1841-T1
Valid prediction for snap_scaffold_1-snap.1848-T1
Valid prediction for HiQ_model.g1052.t1
Valid prediction for snap_scaffold_1-snap.1833-T1
Valid prediction for GlimmerHMM_glimmerT_1428-T1
Valid prediction for GlimmerHMM_glimmerT_1438-T1
Valid prediction for snap_scaffold_1-snap.1842-T1
Valid prediction for CodingQuarry_transcript_2753-T1
Valid prediction for GlimmerHMM_glimmerT_1427-T1
Valid prediction for Augustus_model.g1059.t1
Valid prediction for GlimmerHMM_glimmerT_1432-T1
Valid prediction for GlimmerHMM_glimmerT_1435-T1
Valid prediction for pasa_asmbl_2024.p1
Valid prediction for HiQ_model.g1053.t1
Valid prediction for GlimmerHMM_glimmerT_1447-T1
Valid prediction for GlimmerHMM_glimmerT_1446-T1
Valid prediction for Augustus_model.g1048.t1
Valid prediction for Augustus_model.g1050.t1
Valid prediction for snap_scaffold_1-snap.1825-T1
Couldn't classify 186847, 188307
Sorry, prediction pasa_asmbl_2025.p1 fails validation.
(GTG)	 AT	186847-188307	GG	GAG
Valid prediction for Augustus_model.g1051.t1
Valid prediction for snap_scaffold_1-snap.1832-T1
Couldn't classify 194376, 194484
Sorry, prediction pasa_asmbl_2027.p1 fails validation.
(ATG)	 AC	192862-192951	GT	TGG
(GCC)	 AG	193079-193268	GT	TGG
(AGC)	 AG	193554-193685	GT	CAG
(GTG)	 AG	193781-193920	GT	AGG
(GTG)	 AG	194010-194099	GT	CGG
(GAT)	 AG	194187-194239	GT	AAG
(GGC)	 AG	194376-194484	AT	AGA
-recovered pasa_asmbl_2027.p1, initial, 192862, 192951
-recovered pasa_asmbl_2027.p1, internal, 193079, 193268
-recovered pasa_asmbl_2027.p1, internal, 193554, 193685
-recovered pasa_asmbl_2027.p1, internal, 193781, 193920
-recovered pasa_asmbl_2027.p1, internal, 194010, 194099
-recovered pasa_asmbl_2027.p1, internal, 194187, 194239
Valid prediction for GlimmerHMM_glimmerT_1437-T1
Valid prediction for Augustus_model.g1055.t1
Valid prediction for snap_scaffold_1-snap.1840-T1
Valid prediction for snap_scaffold_1-snap.1830-T1
Valid prediction for Augustus_model.g1047.t1
Valid prediction for Augustus_model.g1057.t1
Couldn't classify 146217, 146438
Sorry, prediction pasa_asmbl_2023.p1 fails validation.
(TCT)	 CC	146217-146438	GT	AGG
(GTG)	 AG	146850-148117	GT	AAG
(GAA)	 AG	148728-148889	GT	GAG
(CTG)	 AG	149819-149941	GT	AGG
(CCA)	 AG	150655-150821	GT	AGG
(GAG)	 AG	151177-151316	GT	CGG
(ATC)	 AG	152135-152164	GT	GTG
(GTG)	 AG	152306-152431	GT	TGG
(GTC)	 AG	152550-152649	GT	GTG
(ATT)	 AG	152922-153083	GT	GTG
(CGG)	 AG	153323-153499	GT	AGG
(GCA)	 AG	154719-154768	GT	AAG
(GGC)	 AG	156143-156697	GC	GAG
-recovered pasa_asmbl_2023.p1, terminal, 156143, 156697
-recovered pasa_asmbl_2023.p1, internal, 146850, 148117
-recovered pasa_asmbl_2023.p1, internal, 148728, 148889
-recovered pasa_asmbl_2023.p1, internal, 149819, 149941
-recovered pasa_asmbl_2023.p1, internal, 150655, 150821
-recovered pasa_asmbl_2023.p1, internal, 151177, 151316
-recovered pasa_asmbl_2023.p1, internal, 152135, 152164
-recovered pasa_asmbl_2023.p1, internal, 152306, 152431
-recovered pasa_asmbl_2023.p1, internal, 152550, 152649
-recovered pasa_asmbl_2023.p1, internal, 152922, 153083
-recovered pasa_asmbl_2023.p1, internal, 153323, 153499
-recovered pasa_asmbl_2023.p1, internal, 154719, 154768
-recovered pasa_asmbl_2023.p1, internal, 156143, 156697
Valid prediction for snap_scaffold_1-snap.1847-T1
Valid prediction for snap_scaffold_1-snap.1824-T1
Valid prediction for GlimmerHMM_glimmerT_1426-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: -)Couldn't classify 181714, 183177
Sorry, prediction pasa_asmbl_593.p1 fails validation.
(ATG)	 AC	181714-183177	AA	GTA
Valid prediction for GlimmerHMM_glimmerT_1439-T1
Valid prediction for GlimmerHMM_glimmerT_1441-T1
Valid prediction for Augustus_model.g1045.t1
Valid prediction for Augustus_model.g1042.t1
Valid prediction for GlimmerHMM_glimmerT_1429-T1
Valid prediction for snap_scaffold_1-snap.1845-T1
Valid prediction for GlimmerHMM_glimmerT_1433-T1
Valid prediction for GlimmerHMM_glimmerT_1448-T1
Valid prediction for GlimmerHMM_glimmerT_1445-T1
Valid prediction for GlimmerHMM_glimmerT_1436-T1
Valid prediction for snap_scaffold_1-snap.1826-T1
Valid prediction for GlimmerHMM_glimmerT_1425-T1
Valid prediction for snap_scaffold_1-snap.1823-T1
Couldn't classify 194151, 194254
Couldn't classify 201534, 201673
Sorry, prediction pasa_asmbl_592.p1 fails validation.
(GAC)	 AA	194151-194254	GT	AGG
(TGT)	 AG	194418-194547	GC	AGG
(GTG)	 AG	195543-195735	GT	AGG
(TCT)	 AG	197364-197573	GT	AGG
(CTA)	 AG	198534-198644	GT	AGG
(GAA)	 AG	200060-200161	GT	AGG
(ATG)	 AG	201534-201673	GG	TGG
-recovered pasa_asmbl_592.p1, internal, 194418, 194547
-recovered pasa_asmbl_592.p1, internal, 195543, 195735
-recovered pasa_asmbl_592.p1, internal, 197364, 197573
-recovered pasa_asmbl_592.p1, internal, 198534, 198644
-recovered pasa_asmbl_592.p1, internal, 200060, 200161
Valid prediction for Augustus_model.g1049.t1
Valid prediction for snap_scaffold_1-snap.1836-T1
Valid prediction for Augustus_model.g1044.t1
Valid prediction for snap_scaffold_1-snap.1834-T1
Valid prediction for HiQ_model.g1058.t1
Valid prediction for snap_scaffold_1-snap.1844-T1
Valid prediction for CodingQuarry_transcript_2754-T1
Valid prediction for GlimmerHMM_glimmerT_1430-T1
Valid prediction for snap_scaffold_1-snap.1831-T1
Valid prediction for pasa_asmbl_599.p1
Couldn't classify 157255, 157323
Sorry, prediction pasa_asmbl_596.p1 fails validation.
(ATG)	 CT	155009-155019	GT	AGG
(TAG)	 AG	155402-155452	GT	TGG
(CCT)	 AG	155626-155774	GT	AGG
(AGG)	 AG	156128-156228	GT	AGG
(TGG)	 AG	157255-157323	AG	AGA
-recovered pasa_asmbl_596.p1, initial, 155009, 155019
-recovered pasa_asmbl_596.p1, internal, 155402, 155452
-recovered pasa_asmbl_596.p1, internal, 155626, 155774
-recovered pasa_asmbl_596.p1, internal, 156128, 156228
Valid prediction for GlimmerHMM_glimmerT_1431-T1
Valid prediction for snap_scaffold_1-snap.1851-T1
Valid prediction for snap_scaffold_1-snap.1838-T1
Valid prediction for snap_scaffold_1-snap.1849-T1
Valid prediction for GlimmerHMM_glimmerT_1440-T1
Valid prediction for Augustus_model.g1054.t1
Valid prediction for Augustus_model.g1043.t1
Valid prediction for GlimmerHMM_glimmerT_1424-T1
Valid prediction for snap_scaffold_1-snap.1843-T1
Valid prediction for snap_scaffold_1-snap.1829-T1
Valid prediction for snap_scaffold_1-snap.1821-T1
Valid prediction for snap_scaffold_1-snap.1835-T1
Valid prediction for snap_scaffold_1-snap.1822-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 98664, rend_intergenic: 93234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122575, rend_intergenic: 119983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131971, rend_intergenic: 128359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140123, rend_intergenic: 137859  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143889, rend_intergenic: 141167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 202649
-exon list size: 293


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.0    
2.4    
2.7    
3.1    
3.4    
3.7    
4.1    
4.4    
4.7    
5.1    
5.4    
5.8    
6.1    
6.4    
6.8    
7.1    
7.5    
7.8    
8.1    
8.5    
8.8    
9.2    
9.5    
9.8    
10.2    
10.5    
10.8    
11.2    
11.5    
11.9    
12.2    
12.5    
12.9    
13.2    
13.6    
13.9    
14.2    
14.6    
14.9    
15.3    
15.6    
15.9    
16.3    
16.6    
16.9    
17.3    
17.6    
18.0    
18.3    
18.6    
19.0    
19.3    
19.7    
20.0    
20.3    
20.7    
21.0    
21.4    
21.7    
22.0    
22.4    
22.7    
23.1    
23.4    
23.7    
24.1    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.4    
26.8    
27.1    
27.5    
27.8    
28.1    
28.5    
28.8    
29.2    
29.5    
29.8    
30.2    
30.5    
30.8    
31.2    
31.5    
31.9    
32.2    
32.5    
32.9    
33.2    
33.6    
33.9    
34.2    
34.6    
34.9    
35.3    
35.6    
35.9    
36.3    
36.6    
36.9    
37.3    
37.6    
38.0    
38.3    
38.6    
39.0    
39.3    
39.7    
40.0    
40.3    
40.7    
41.0    
41.4    
41.7    
42.0    
42.4    
42.7    
43.1    
43.4    
43.7    
44.1    
44.4    
44.7    
45.1    
45.4    
45.8    
46.1    
46.4    
46.8    
47.1    
47.5    
47.8    
48.1    
48.5    
48.8    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.2    
51.5    
51.9    
52.2    
52.5    
52.9    
53.2    
53.6    
53.9    
54.2    
54.6    
54.9    
55.3    
55.6    
55.9    
56.3    
56.6    
56.9    
57.3    
57.6    
58.0    
58.3    
58.6    
59.0    
59.3    
59.7    
60.0    
60.3    
60.7    
61.0    
61.4    
61.7    
62.0    
62.4    
62.7    
63.1    
63.4    
63.7    
64.1    
64.4    
64.7    
65.1    
65.4    
65.8    
66.1    
66.4    
66.8    
67.1    
67.5    
67.8    
68.1    
68.5    
68.8    
69.2    
69.5    
69.8    
70.2    
70.5    
70.8    
71.2    
71.5    
71.9    
72.2    
72.5    
72.9    
73.2    
73.6    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
75.9    
76.3    
76.6    
76.9    
77.3    
77.6    
78.0    
78.3    
78.6    
79.0    
79.3    
79.7    
80.0    
80.3    
80.7    
81.0    
81.4    
81.7    
82.0    
82.4    
82.7    
83.1    
83.4    
83.7    
84.1    
84.4    
84.7    
85.1    
85.4    
85.8    
86.1    
86.4    
86.8    
87.1    
87.5    
87.8    
88.1    
88.5    
88.8    
89.2    
89.5    
89.8    
90.2    
90.5    
90.8    
91.2    
91.5    
91.9    
92.2    
92.5    
92.9    
93.2    
93.6    
93.9    
94.2    
94.6    
94.9    
95.3    
95.6    
95.9    
96.3    
96.6    
96.9    
97.3    
97.6    
98.0    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 30 predictions from path traversal
Error with prediction: snap lend_intergenic: 98664, rend_intergenic: 93234  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 122575, rend_intergenic: 119983  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 131971, rend_intergenic: 128359  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 140123, rend_intergenic: 137859  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 143889, rend_intergenic: 141167  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 26 predictions persist after filtering for low support