-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_16/scaffold_16_15239710-15312822

-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_16-snap.2976-T1
Valid prediction for GeneMark_model.69600_t
Valid prediction for GlimmerHMM_glimmerT_40432-T1
Valid prediction for GeneMark_model.69608_t
Valid prediction for snap_scaffold_16-snap.2973-T1
Valid prediction for GeneMark_model.69602_t
Valid prediction for GeneMark_model.69604_t
Valid prediction for snap_scaffold_16-snap.2971-T1
Sorry, intron length (8) is less than minimum required (10)
Valid prediction for snap_scaffold_16-snap.2980-T1
Valid prediction for snap_scaffold_16-snap.2977-T1
Valid prediction for snap_scaffold_16-snap.2982-T1
Valid prediction for GeneMark_model.69605_t
Couldn't classify 73024, 73102
Sorry, prediction GeneMark_model.69610_t fails validation.
(ATG)	 TC	71579-71630	GT	CTG
(GCA)	 AG	73024-73102	GC	GGG
-recovered GeneMark_model.69610_t, initial, 71579, 71630
-recovered GeneMark_model.69610_t, internal, 73024, 73102
Valid prediction for snap_scaffold_16-snap.2984-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_16-snap.2970-T1
Valid prediction for snap_scaffold_16-snap.2972-T1
Valid prediction for CodingQuarry_transcript_20106-T1
Valid prediction for snap_scaffold_16-snap.2983-T1
Valid prediction for GlimmerHMM_glimmerT_40428-T1
Valid prediction for pasa_asmbl_16687.p1
Valid prediction for snap_scaffold_16-snap.2975-T1
Valid prediction for GeneMark_model.69607_t
Valid prediction for snap_scaffold_16-snap.2974-T1
Valid prediction for GeneMark_model.69603_t
Valid prediction for GeneMark_model.69606_t
Valid prediction for GlimmerHMM_glimmerT_40434-T1
Valid prediction for pasa_asmbl_16707.p1
Valid prediction for snap_scaffold_16-snap.2978-T1
Valid prediction for GlimmerHMM_glimmerT_40435-T1
Valid prediction for GeneMark_model.69599_t
Valid prediction for GeneMark_model.69598_t
Valid prediction for GlimmerHMM_glimmerT_40433-T1
Valid prediction for GlimmerHMM_glimmerT_40431-T1
Valid prediction for GeneMark_model.69601_t
Valid prediction for snap_scaffold_16-snap.2979-T1
Valid prediction for snap_scaffold_16-snap.2985-T1
Valid prediction for GlimmerHMM_glimmerT_40430-T1
Valid prediction for GeneMark_model.69597_t
Valid prediction for snap_scaffold_16-snap.2986-T1
Valid prediction for snap_scaffold_16-snap.2981-T1
Couldn't classify 48757, 48936
Sorry, prediction pasa_asmbl_16689.p1 fails validation.
(TTG)	 AG	48757-48936	GT	GGG
(CTG)	 AG	49076-49270	GT	AGG
(GGG)	 AG	50713-50892	GT	ATG
(CAA)	 AG	51171-51403	GT	AGG
(GGA)	 AG	51687-51816	GT	AGG
(GGT)	 AG	52543-52674	GT	AGG
(GAC)	 AG	52936-53173	GT	TGG
(GTT)	 AG	53405-53482	GT	AGG
(CTG)	 AG	54091-54245	GG	GAG
-recovered pasa_asmbl_16689.p1, terminal, 54091, 54245
-recovered pasa_asmbl_16689.p1, internal, 48757, 48936
-recovered pasa_asmbl_16689.p1, internal, 49076, 49270
-recovered pasa_asmbl_16689.p1, internal, 50713, 50892
-recovered pasa_asmbl_16689.p1, internal, 51171, 51403
-recovered pasa_asmbl_16689.p1, internal, 51687, 51816
-recovered pasa_asmbl_16689.p1, internal, 52543, 52674
-recovered pasa_asmbl_16689.p1, internal, 52936, 53173
-recovered pasa_asmbl_16689.p1, internal, 53405, 53482
Valid prediction for GlimmerHMM_glimmerT_40429-T1
Valid prediction for GeneMark_model.69609_t

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 4300, rend_intergenic: 2441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6404, rend_intergenic: 4506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7757, rend_intergenic: 6926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24303, rend_intergenic: 22008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28762, rend_intergenic: 25310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36512, rend_intergenic: 33551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38168, rend_intergenic: 36659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45136, rend_intergenic: 40176  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47774, rend_intergenic: 45408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54926, rend_intergenic: 50318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 73113
-exon list size: 179


building trellis

0.6    
1.1    
1.7    
2.2    
2.8    
3.3    
3.9    
4.4    
5.0    
5.5    
6.1    
6.6    
7.2    
7.7    
8.3    
8.8    
9.4    
9.9    
10.5    
11.0    
11.6    
12.2    
12.7    
13.3    
13.8    
14.4    
14.9    
15.5    
16.0    
16.6    
17.1    
17.7    
18.2    
18.8    
19.3    
19.9    
20.4    
21.0    
21.5    
22.1    
22.7    
23.2    
23.8    
24.3    
24.9    
25.4    
26.0    
26.5    
27.1    
27.6    
28.2    
28.7    
29.3    
29.8    
30.4    
30.9    
31.5    
32.0    
32.6    
33.1    
33.7    
34.3    
34.8    
35.4    
35.9    
36.5    
37.0    
37.6    
38.1    
38.7    
39.2    
39.8    
40.3    
40.9    
41.4    
42.0    
42.5    
43.1    
43.6    
44.2    
44.8    
45.3    
45.9    
46.4    
47.0    
47.5    
48.1    
48.6    
49.2    
49.7    
50.3    
50.8    
51.4    
51.9    
52.5    
53.0    
53.6    
54.1    
54.7    
55.2    
55.8    
56.4    
56.9    
57.5    
58.0    
58.6    
59.1    
59.7    
60.2    
60.8    
61.3    
61.9    
62.4    
63.0    
63.5    
64.1    
64.6    
65.2    
65.7    
66.3    
66.9    
67.4    
68.0    
68.5    
69.1    
69.6    
70.2    
70.7    
71.3    
71.8    
72.4    
72.9    
73.5    
74.0    
74.6    
75.1    
75.7    
76.2    
76.8    
77.3    
77.9    
78.5    
79.0    
79.6    
80.1    
80.7    
81.2    
81.8    
82.3    
82.9    
83.4    
84.0    
84.5    
85.1    
85.6    
86.2    
86.7    
87.3    
87.8    
88.4    
89.0    
89.5    
90.1    
90.6    
91.2    
91.7    
92.3    
92.8    
93.4    
93.9    
94.5    
95.0    
95.6    
96.1    
96.7    
97.2    
97.8    
98.3    
98.9    
99.4    
-found 8 predictions from path traversal
Error with prediction: snap lend_intergenic: 4300, rend_intergenic: 2441  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 6404, rend_intergenic: 4506  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 7757, rend_intergenic: 6926  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 24303, rend_intergenic: 22008  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 28762, rend_intergenic: 25310  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 36512, rend_intergenic: 33551  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 38168, rend_intergenic: 36659  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 45136, rend_intergenic: 40176  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 47774, rend_intergenic: 45408  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 54926, rend_intergenic: 50318  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 5 predictions persist after filtering for low support