-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_13/scaffold_13_10517320-10695434

-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_13-snap.1940-T1
Valid prediction for snap_scaffold_13-snap.1957-T1
Valid prediction for snap_scaffold_13-snap.1963-T1
Valid prediction for snap_scaffold_13-snap.1949-T1
Valid prediction for pasa_asmbl_11244.p1
Valid prediction for snap_scaffold_13-snap.1955-T1
Valid prediction for snap_scaffold_13-snap.1950-T1
Valid prediction for Augustus_model.g21546.t1
Valid prediction for snap_scaffold_13-snap.1939-T1
Valid prediction for snap_scaffold_13-snap.1954-T1
Couldn't classify 141184, 141294
Sorry, prediction pasa_asmbl_11248.p1 fails validation.
(GAG)	 AG	141184-141294	GT	TGG
(ATT)	 AG	141400-141467	GT	AGG
(AGT)	 AG	141597-141687	GT	AGG
(GAC)	 AG	141902-141985	GT	AGG
(AGG)	 AG	142091-142184	GT	AGG
(AAA)	 AG	142428-142504	TC	GAT
-recovered pasa_asmbl_11248.p1, terminal, 142428, 142504
-recovered pasa_asmbl_11248.p1, internal, 141184, 141294
-recovered pasa_asmbl_11248.p1, internal, 141400, 141467
-recovered pasa_asmbl_11248.p1, internal, 141597, 141687
-recovered pasa_asmbl_11248.p1, internal, 141902, 141985
-recovered pasa_asmbl_11248.p1, internal, 142091, 142184
Valid prediction for GlimmerHMM_glimmerT_32297-T1
Valid prediction for snap_scaffold_13-snap.1964-T1
Valid prediction for Augustus_model.g21558.t1
Valid prediction for GlimmerHMM_glimmerT_32276-T1
Valid prediction for GlimmerHMM_glimmerT_32291-T1
Valid prediction for Augustus_model.g21559.t1
Valid prediction for snap_scaffold_13-snap.1943-T1
Valid prediction for GlimmerHMM_glimmerT_32282-T1
Valid prediction for snap_scaffold_13-snap.1944-T1
Valid prediction for GlimmerHMM_glimmerT_32277-T1
Valid prediction for HiQ_model.g21556.t1
Valid prediction for GlimmerHMM_glimmerT_32286-T1
Valid prediction for snap_scaffold_13-snap.1971-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_13-snap.1973-T1
Valid prediction for GlimmerHMM_glimmerT_32280-T1
Valid prediction for CodingQuarry_transcript_13228-T1
Valid prediction for snap_scaffold_13-snap.1959-T1
Valid prediction for GlimmerHMM_glimmerT_32296-T1
Valid prediction for HiQ_model.g21548.t1
Valid prediction for snap_scaffold_13-snap.1969-T1
Valid prediction for Augustus_model.g21552.t1
Valid prediction for snap_scaffold_13-snap.1953-T1
Couldn't classify 44172, 44639
Sorry, prediction pasa_asmbl_11245.p1 fails validation.
(AAC)	 TC	44172-44639	GT	CAG
Valid prediction for snap_scaffold_13-snap.1965-T1
Valid prediction for CodingQuarry_transcript_13229-T1
Valid prediction for GlimmerHMM_glimmerT_32295-T1
Valid prediction for Augustus_model.g21549.t1
Valid prediction for GlimmerHMM_glimmerT_32302-T1
Valid prediction for snap_scaffold_13-snap.1975-T1
Valid prediction for GlimmerHMM_glimmerT_32289-T1
Valid prediction for snap_scaffold_13-snap.1966-T1
Sorry, intron length (4) is less than minimum required (10)

-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_32287-T1
Valid prediction for snap_scaffold_13-snap.1960-T1
Valid prediction for GlimmerHMM_glimmerT_32293-T1
Valid prediction for CodingQuarry_transcript_13230-T1
Valid prediction for GlimmerHMM_glimmerT_32299-T1
Valid prediction for GlimmerHMM_glimmerT_32301-T1
Valid prediction for GlimmerHMM_glimmerT_32283-T1
Valid prediction for GlimmerHMM_glimmerT_32285-T1
Valid prediction for pasa_asmbl_10059.p1
Valid prediction for snap_scaffold_13-snap.1961-T1
Valid prediction for Augustus_model.g21560.t1
Valid prediction for Augustus_model.g21550.t1
Valid prediction for snap_scaffold_13-snap.1970-T1
Valid prediction for GlimmerHMM_glimmerT_32281-T1
Valid prediction for GlimmerHMM_glimmerT_32298-T1
Valid prediction for GlimmerHMM_glimmerT_32279-T1
Valid prediction for snap_scaffold_13-snap.1974-T1
Valid prediction for Augustus_model.g21561.t1
Valid prediction for snap_scaffold_13-snap.1947-T1
Valid prediction for Augustus_model.g21557.t1
Valid prediction for snap_scaffold_13-snap.1956-T1
Valid prediction for GlimmerHMM_glimmerT_32290-T1
Valid prediction for GlimmerHMM_glimmerT_32300-T1
Valid prediction for Augustus_model.g21554.t1
Valid prediction for snap_scaffold_13-snap.1962-T1
Valid prediction for snap_scaffold_13-snap.1946-T1
Valid prediction for snap_scaffold_13-snap.1948-T1
Valid prediction for Augustus_model.g21551.t1
Valid prediction for GlimmerHMM_glimmerT_32288-T1
Valid prediction for GlimmerHMM_glimmerT_32278-T1
Valid prediction for snap_scaffold_13-snap.1945-T1
Valid prediction for Augustus_model.g21553.t1
Valid prediction for GlimmerHMM_glimmerT_32292-T1
Valid prediction for HiQ_model.g21555.t1
Valid prediction for Augustus_model.g21547.t1
Valid prediction for GlimmerHMM_glimmerT_32294-T1
Valid prediction for snap_scaffold_13-snap.1958-T1
Valid prediction for snap_scaffold_13-snap.1951-T1
Valid prediction for snap_scaffold_13-snap.1967-T1
Valid prediction for snap_scaffold_13-snap.1952-T1
Valid prediction for snap_scaffold_13-snap.1968-T1
Valid prediction for GlimmerHMM_glimmerT_32284-T1
Valid prediction for Augustus_model.g21562.t1
Valid prediction for snap_scaffold_13-snap.1941-T1
Valid prediction for snap_scaffold_13-snap.1972-T1
Valid prediction for snap_scaffold_13-snap.1942-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 17834, rend_intergenic: 5164  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34979, rend_intergenic: 26844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58404, rend_intergenic: 57229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74559, rend_intergenic: 60662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150917, rend_intergenic: 149460  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156853, rend_intergenic: 153967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159382, rend_intergenic: 158261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163249, rend_intergenic: 159561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164630, rend_intergenic: 163249  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169759, rend_intergenic: 164772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174432, rend_intergenic: 169800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 178115
-exon list size: 325


building trellis

0.3    
0.6    
0.9    
1.2    
1.5    
1.8    
2.1    
2.4    
2.8    
3.1    
3.4    
3.7    
4.0    
4.3    
4.6    
4.9    
5.2    
5.5    
5.8    
6.1    
6.4    
6.7    
7.0    
7.3    
7.6    
8.0    
8.3    
8.6    
8.9    
9.2    
9.5    
9.8    
10.1    
10.4    
10.7    
11.0    
11.3    
11.6    
11.9    
12.2    
12.5    
12.8    
13.1    
13.5    
13.8    
14.1    
14.4    
14.7    
15.0    
15.3    
15.6    
15.9    
16.2    
16.5    
16.8    
17.1    
17.4    
17.7    
18.0    
18.3    
18.7    
19.0    
19.3    
19.6    
19.9    
20.2    
20.5    
20.8    
21.1    
21.4    
21.7    
22.0    
22.3    
22.6    
22.9    
23.2    
23.5    
23.9    
24.2    
24.5    
24.8    
25.1    
25.4    
25.7    
26.0    
26.3    
26.6    
26.9    
27.2    
27.5    
27.8    
28.1    
28.4    
28.7    
29.1    
29.4    
29.7    
30.0    
30.3    
30.6    
30.9    
31.2    
31.5    
31.8    
32.1    
32.4    
32.7    
33.0    
33.3    
33.6    
33.9    
34.3    
34.6    
34.9    
35.2    
35.5    
35.8    
36.1    
36.4    
36.7    
37.0    
37.3    
37.6    
37.9    
38.2    
38.5    
38.8    
39.1    
39.4    
39.8    
40.1    
40.4    
40.7    
41.0    
41.3    
41.6    
41.9    
42.2    
42.5    
42.8    
43.1    
43.4    
43.7    
44.0    
44.3    
44.6    
45.0    
45.3    
45.6    
45.9    
46.2    
46.5    
46.8    
47.1    
47.4    
47.7    
48.0    
48.3    
48.6    
48.9    
49.2    
49.5    
49.8    
50.2    
50.5    
50.8    
51.1    
51.4    
51.7    
52.0    
52.3    
52.6    
52.9    
53.2    
53.5    
53.8    
54.1    
54.4    
54.7    
55.0    
55.4    
55.7    
56.0    
56.3    
56.6    
56.9    
57.2    
57.5    
57.8    
58.1    
58.4    
58.7    
59.0    
59.3    
59.6    
59.9    
60.2    
60.6    
60.9    
61.2    
61.5    
61.8    
62.1    
62.4    
62.7    
63.0    
63.3    
63.6    
63.9    
64.2    
64.5    
64.8    
65.1    
65.4    
65.7    
66.1    
66.4    
66.7    
67.0    
67.3    
67.6    
67.9    
68.2    
68.5    
68.8    
69.1    
69.4    
69.7    
70.0    
70.3    
70.6    
70.9    
71.3    
71.6    
71.9    
72.2    
72.5    
72.8    
73.1    
73.4    
73.7    
74.0    
74.3    
74.6    
74.9    
75.2    
75.5    
75.8    
76.1    
76.5    
76.8    
77.1    
77.4    
77.7    
78.0    
78.3    
78.6    
78.9    
79.2    
79.5    
79.8    
80.1    
80.4    
80.7    
81.0    
81.3    
81.7    
82.0    
82.3    
82.6    
82.9    
83.2    
83.5    
83.8    
84.1    
84.4    
84.7    
85.0    
85.3    
85.6    
85.9    
86.2    
86.5    
86.9    
87.2    
87.5    
87.8    
88.1    
88.4    
88.7    
89.0    
89.3    
89.6    
89.9    
90.2    
90.5    
90.8    
91.1    
91.4    
91.7    
92.0    
92.4    
92.7    
93.0    
93.3    
93.6    
93.9    
94.2    
94.5    
94.8    
95.1    
95.4    
95.7    
96.0    
96.3    
96.6    
96.9    
97.2    
97.6    
97.9    
98.2    
98.5    
98.8    
99.1    
99.4    
99.7    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 17834, rend_intergenic: 5164  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 34979, rend_intergenic: 26844  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 58404, rend_intergenic: 57229  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 74559, rend_intergenic: 60662  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 150917, rend_intergenic: 149460  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 156853, rend_intergenic: 153967  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 159382, rend_intergenic: 158261  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 163249, rend_intergenic: 159561  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 164630, rend_intergenic: 163249  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169759, rend_intergenic: 164772  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 174432, rend_intergenic: 169800  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 19 predictions persist after filtering for low support