-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_16369904-16506281

-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 Augustus_model.g1612.t1
Valid prediction for snap_scaffold_1-snap.2896-T1
Valid prediction for Augustus_model.g1617.t1
Valid prediction for GlimmerHMM_glimmerT_2171-T1
Valid prediction for snap_scaffold_1-snap.2888-T1
Valid prediction for snap_scaffold_1-snap.2906-T1
Valid prediction for snap_scaffold_1-snap.2905-T1
Valid prediction for snap_scaffold_1-snap.2898-T1
Valid prediction for snap_scaffold_1-snap.2893-T1
Valid prediction for GlimmerHMM_glimmerT_2174-T1
Valid prediction for Augustus_model.g1610.t1
Valid prediction for GlimmerHMM_glimmerT_2159-T1
Valid prediction for snap_scaffold_1-snap.2894-T1
Valid prediction for snap_scaffold_1-snap.2915-T1
Valid prediction for snap_scaffold_1-snap.2897-T1
Valid prediction for snap_scaffold_1-snap.2879-T1
Valid prediction for snap_scaffold_1-snap.2882-T1
Valid prediction for snap_scaffold_1-snap.2902-T1
Valid prediction for snap_scaffold_1-snap.2913-T1
Valid prediction for GlimmerHMM_glimmerT_2170-T1
Valid prediction for Augustus_model.g1611.t1
Valid prediction for GlimmerHMM_glimmerT_2165-T1
Valid prediction for snap_scaffold_1-snap.2889-T1
Valid prediction for GlimmerHMM_glimmerT_2163-T1
Valid prediction for snap_scaffold_1-snap.2907-T1
Valid prediction for snap_scaffold_1-snap.2885-T1
Valid prediction for snap_scaffold_1-snap.2903-T1
Valid prediction for snap_scaffold_1-snap.2890-T1
Valid prediction for snap_scaffold_1-snap.2900-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_1-snap.2887-T1
Valid prediction for Augustus_model.g1603.t1
Valid prediction for Augustus_model.g1607.t1
Valid prediction for Augustus_model.g1616.t1
Valid prediction for GlimmerHMM_glimmerT_2157-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_1-snap.2911-T1
Valid prediction for snap_scaffold_1-snap.2891-T1
Valid prediction for GlimmerHMM_glimmerT_2160-T1
Valid prediction for Augustus_model.g1606.t1
Valid prediction for GlimmerHMM_glimmerT_2158-T1
Valid prediction for snap_scaffold_1-snap.2901-T1
Valid prediction for snap_scaffold_1-snap.2886-T1
Valid prediction for Augustus_model.g1609.t1
Valid prediction for GlimmerHMM_glimmerT_2161-T1
Valid prediction for Augustus_model.g1602.t1
Valid prediction for Augustus_model.g1614.t1
Valid prediction for snap_scaffold_1-snap.2881-T1
Valid prediction for snap_scaffold_1-snap.2910-T1
Valid prediction for snap_scaffold_1-snap.2878-T1
Couldn't classify 7997, 7998
Sorry, prediction CodingQuarry_transcript_2960-T1 fails validation.
(ATG)	 GA	7997-7998	GT	ATG
(GGT)	 AG	8631-8763	GT	AGG
(GAA)	 AG	9709-9819	AC	GAA
-recovered CodingQuarry_transcript_2960-T1, terminal, 9709, 9819
-recovered CodingQuarry_transcript_2960-T1, internal, 8631, 8763
Valid prediction for snap_scaffold_1-snap.2892-T1
Valid prediction for GlimmerHMM_glimmerT_2167-T1
Valid prediction for snap_scaffold_1-snap.2914-T1
Valid prediction for GlimmerHMM_glimmerT_2168-T1
Valid prediction for snap_scaffold_1-snap.2912-T1
Valid prediction for Augustus_model.g1608.t1
Valid prediction for GlimmerHMM_glimmerT_2169-T1
Valid prediction for snap_scaffold_1-snap.2883-T1
Valid prediction for GlimmerHMM_glimmerT_2173-T1
Valid prediction for snap_scaffold_1-snap.2916-T1
Valid prediction for snap_scaffold_1-snap.2909-T1
Valid prediction for Augustus_model.g1604.t1
Valid prediction for snap_scaffold_1-snap.2899-T1
Valid prediction for CodingQuarry_transcript_2959-T1
Valid prediction for snap_scaffold_1-snap.2904-T1
Valid prediction for GlimmerHMM_glimmerT_2172-T1
Couldn't classify 18325, 18326
Sorry, prediction CodingQuarry_transcript_2957-T1 fails validation.
(ATG)	 AA	18325-18326	GT	ATG
(GAG)	 AG	18624-18723	GT	CTG
(GCC)	 AG	19375-19496	GT	AGG
(GTG)	 AG	21352-21481	GT	ATG
(GTA)	 AG	21831-21910	GT	AGG
(ACA)	 AG	22113-22276	GT	AGG
(ATA)	 AG	22893-22951	GT	AGG
(CCC)	 AG	24107-24139	GT	ATG
(GTG)	 AG	24555-24613	GT	ACG
(GTT)	 AG	25056-25122	GT	AGG
(TGT)	 AG	25420-25470	GC	AGG
(CTG)	 AG	25845-26021	GT	ACG
(GTG)	 AG	26242-26373	GT	AGG
(GAG)	 AG	26580-26672	GT	GGG
(AAC)	 AG	26820-26881	GT	AGG
(GTT)	 AG	27212-27288	GT	GGG
(GTC)	 AG	27472-27535	GT	AGG
(GTG)	 AG	27785-27938	CC	GAC
-recovered CodingQuarry_transcript_2957-T1, terminal, 27785, 27938
-recovered CodingQuarry_transcript_2957-T1, internal, 18624, 18723
-recovered CodingQuarry_transcript_2957-T1, internal, 19375, 19496
-recovered CodingQuarry_transcript_2957-T1, internal, 21352, 21481
-recovered CodingQuarry_transcript_2957-T1, internal, 21831, 21910
-recovered CodingQuarry_transcript_2957-T1, internal, 22113, 22276
-recovered CodingQuarry_transcript_2957-T1, internal, 22893, 22951
-recovered CodingQuarry_transcript_2957-T1, internal, 24107, 24139
-recovered CodingQuarry_transcript_2957-T1, internal, 24555, 24613
-recovered CodingQuarry_transcript_2957-T1, internal, 25056, 25122
-recovered CodingQuarry_transcript_2957-T1, internal, 25420, 25470
-recovered CodingQuarry_transcript_2957-T1, internal, 25845, 26021
-recovered CodingQuarry_transcript_2957-T1, internal, 26242, 26373
-recovered CodingQuarry_transcript_2957-T1, internal, 26580, 26672
-recovered CodingQuarry_transcript_2957-T1, internal, 26820, 26881
-recovered CodingQuarry_transcript_2957-T1, internal, 27212, 27288
-recovered CodingQuarry_transcript_2957-T1, internal, 27472, 27535
Valid prediction for snap_scaffold_1-snap.2884-T1
Valid prediction for snap_scaffold_1-snap.2895-T1
Valid prediction for GlimmerHMM_glimmerT_2166-T1
Valid prediction for HiQ_model.g1615.t1
Valid prediction for GlimmerHMM_glimmerT_2164-T1
Valid prediction for Augustus_model.g1605.t1
Couldn't classify 18325, 18326
Sorry, prediction CodingQuarry_transcript_2958-T1 fails validation.
(ATG)	 AA	18325-18326	GT	ATG
(GAG)	 AG	18624-18840	GG	GAG
-recovered CodingQuarry_transcript_2958-T1, terminal, 18624, 18840
Valid prediction for pasa_asmbl_990.p1
Valid prediction for snap_scaffold_1-snap.2880-T1
Valid prediction for GlimmerHMM_glimmerT_2162-T1
Valid prediction for snap_scaffold_1-snap.2908-T1
Valid prediction for HiQ_model.g1613.t1
Valid prediction for pasa_asmbl_999.p1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 6607, rend_intergenic: 1630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28433, rend_intergenic: 18884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33284, rend_intergenic: 30714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47853, rend_intergenic: 37776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54850, rend_intergenic: 48734  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57430, rend_intergenic: 55849  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62622, rend_intergenic: 58495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71959, rend_intergenic: 62736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75068, rend_intergenic: 74184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79311, rend_intergenic: 75402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85500, rend_intergenic: 82731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98801, rend_intergenic: 95047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 136378
-exon list size: 285


building trellis

0.3    
0.7    
1.0    
1.4    
1.7    
2.1    
2.4    
2.8    
3.1    
3.5    
3.8    
4.2    
4.5    
4.9    
5.2    
5.6    
5.9    
6.3    
6.6    
7.0    
7.3    
7.7    
8.0    
8.4    
8.7    
9.1    
9.4    
9.8    
10.1    
10.5    
10.8    
11.1    
11.5    
11.8    
12.2    
12.5    
12.9    
13.2    
13.6    
13.9    
14.3    
14.6    
15.0    
15.3    
15.7    
16.0    
16.4    
16.7    
17.1    
17.4    
17.8    
18.1    
18.5    
18.8    
19.2    
19.5    
19.9    
20.2    
20.6    
20.9    
21.3    
21.6    
22.0    
22.3    
22.6    
23.0    
23.3    
23.7    
24.0    
24.4    
24.7    
25.1    
25.4    
25.8    
26.1    
26.5    
26.8    
27.2    
27.5    
27.9    
28.2    
28.6    
28.9    
29.3    
29.6    
30.0    
30.3    
30.7    
31.0    
31.4    
31.7    
32.1    
32.4    
32.8    
33.1    
33.4    
33.8    
34.1    
34.5    
34.8    
35.2    
35.5    
35.9    
36.2    
36.6    
36.9    
37.3    
37.6    
38.0    
38.3    
38.7    
39.0    
39.4    
39.7    
40.1    
40.4    
40.8    
41.1    
41.5    
41.8    
42.2    
42.5    
42.9    
43.2    
43.6    
43.9    
44.3    
44.6    
44.9    
45.3    
45.6    
46.0    
46.3    
46.7    
47.0    
47.4    
47.7    
48.1    
48.4    
48.8    
49.1    
49.5    
49.8    
50.2    
50.5    
50.9    
51.2    
51.6    
51.9    
52.3    
52.6    
53.0    
53.3    
53.7    
54.0    
54.4    
54.7    
55.1    
55.4    
55.7    
56.1    
56.4    
56.8    
57.1    
57.5    
57.8    
58.2    
58.5    
58.9    
59.2    
59.6    
59.9    
60.3    
60.6    
61.0    
61.3    
61.7    
62.0    
62.4    
62.7    
63.1    
63.4    
63.8    
64.1    
64.5    
64.8    
65.2    
65.5    
65.9    
66.2    
66.6    
66.9    
67.2    
67.6    
67.9    
68.3    
68.6    
69.0    
69.3    
69.7    
70.0    
70.4    
70.7    
71.1    
71.4    
71.8    
72.1    
72.5    
72.8    
73.2    
73.5    
73.9    
74.2    
74.6    
74.9    
75.3    
75.6    
76.0    
76.3    
76.7    
77.0    
77.4    
77.7    
78.0    
78.4    
78.7    
79.1    
79.4    
79.8    
80.1    
80.5    
80.8    
81.2    
81.5    
81.9    
82.2    
82.6    
82.9    
83.3    
83.6    
84.0    
84.3    
84.7    
85.0    
85.4    
85.7    
86.1    
86.4    
86.8    
87.1    
87.5    
87.8    
88.2    
88.5    
88.9    
89.2    
89.5    
89.9    
90.2    
90.6    
90.9    
91.3    
91.6    
92.0    
92.3    
92.7    
93.0    
93.4    
93.7    
94.1    
94.4    
94.8    
95.1    
95.5    
95.8    
96.2    
96.5    
96.9    
97.2    
97.6    
97.9    
98.3    
98.6    
99.0    
99.3    
99.7    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 6607, rend_intergenic: 1630  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28433, rend_intergenic: 18884  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 33284, rend_intergenic: 30714  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47853, rend_intergenic: 37776  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54850, rend_intergenic: 48734  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 57430, rend_intergenic: 55849  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 62622, rend_intergenic: 58495  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 71959, rend_intergenic: 62736  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 75068, rend_intergenic: 74184  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 79311, rend_intergenic: 75402  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 85500, rend_intergenic: 82731  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 98801, rend_intergenic: 95047  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 13 predictions persist after filtering for low support