-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_24/scaffold_24_10692261-10845424

-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_53397-T1
Valid prediction for snap_scaffold_24-snap.2294-T1
Couldn't classify 132628, 132669
Couldn't classify 135585, 135658
Sorry, prediction pasa_asmbl_32590.p1 fails validation.
(CAC)	 CA	132628-132669	GT	AGG
(GTG)	 AG	135048-135160	GT	AGG
(GAT)	 AG	135255-135400	GT	AGG
(GTG)	 AG	135585-135658	TG	AGT
-recovered pasa_asmbl_32590.p1, internal, 135048, 135160
-recovered pasa_asmbl_32590.p1, internal, 135255, 135400
Valid prediction for GlimmerHMM_glimmerT_53405-T1
Valid prediction for pasa_asmbl_32588.p1
Valid prediction for snap_scaffold_24-snap.2302-T1
Valid prediction for GlimmerHMM_glimmerT_53408-T1
Valid prediction for snap_scaffold_24-snap.2307-T1
Valid prediction for snap_scaffold_24-snap.2313-T1
Valid prediction for GlimmerHMM_glimmerT_53403-T1
Valid prediction for snap_scaffold_24-snap.2315-T1
Valid prediction for snap_scaffold_24-snap.2316-T1
Valid prediction for snap_scaffold_24-snap.2303-T1
Valid prediction for GlimmerHMM_glimmerT_53401-T1
Valid prediction for GlimmerHMM_glimmerT_53402-T1
Couldn't classify 144420, 144743
Sorry, prediction pasa_asmbl_32592.p1 fails validation.
(ATG)	 AA	143670-143879	GT	AGG
(GCC)	 AG	144420-144743	GT	AGG
-recovered pasa_asmbl_32592.p1, initial, 143670, 143879
-recovered pasa_asmbl_32592.p1, internal, 144420, 144743
Couldn't classify 149162, 149288
Sorry, prediction GlimmerHMM_glimmerT_53410-T1 fails validation.
(ATG)	 AA	143670-143879	GT	AGG
(GCC)	 AG	144420-144743	GT	AGG
(TTT)	 AG	149162-149288	GT	AGG
-recovered GlimmerHMM_glimmerT_53410-T1, initial, 143670, 143879
-recovered GlimmerHMM_glimmerT_53410-T1, internal, 144420, 144743
-recovered GlimmerHMM_glimmerT_53410-T1, internal, 149162, 149288
Valid prediction for snap_scaffold_24-snap.2301-T1
Valid prediction for snap_scaffold_24-snap.2300-T1
Valid prediction for snap_scaffold_24-snap.2298-T1
Valid prediction for snap_scaffold_24-snap.2306-T1
Valid prediction for snap_scaffold_24-snap.2299-T1
Valid prediction for snap_scaffold_24-snap.2310-T1
Valid prediction for GlimmerHMM_glimmerT_53407-T1
Valid prediction for snap_scaffold_24-snap.2318-T1
Valid prediction for snap_scaffold_24-snap.2317-T1
Couldn't classify 136388, 136600
Sorry, prediction pasa_asmbl_32589.p1 fails validation.
(ATG)	 GT	135009-135160	GT	AGG
(GAT)	 AG	135255-135400	GT	AGG
(GTG)	 AG	135585-135657	GT	AAG
(GTA)	 AG	135751-135902	GT	AGG
(GTC)	 AG	136123-136250	GT	AGG
(TCC)	 AG	136388-136600	GC	GGG
-recovered pasa_asmbl_32589.p1, initial, 135009, 135160
-recovered pasa_asmbl_32589.p1, internal, 135255, 135400
-recovered pasa_asmbl_32589.p1, internal, 135585, 135657
-recovered pasa_asmbl_32589.p1, internal, 135751, 135902
-recovered pasa_asmbl_32589.p1, internal, 136123, 136250
-recovered pasa_asmbl_32589.p1, internal, 136388, 136600

-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_24-snap.2314-T1
Valid prediction for snap_scaffold_24-snap.2309-T1
Valid prediction for GlimmerHMM_glimmerT_53398-T1
Valid prediction for snap_scaffold_24-snap.2295-T1
Valid prediction for snap_scaffold_24-snap.2311-T1
Valid prediction for snap_scaffold_24-snap.2304-T1
Valid prediction for pasa_asmbl_33218.p1
Valid prediction for GlimmerHMM_glimmerT_53399-T1
Valid prediction for GlimmerHMM_glimmerT_53400-T1
Valid prediction for GlimmerHMM_glimmerT_53406-T1
Valid prediction for snap_scaffold_24-snap.2305-T1
Valid prediction for snap_scaffold_24-snap.2312-T1
Valid prediction for snap_scaffold_24-snap.2296-T1
Valid prediction for snap_scaffold_24-snap.2297-T1
Valid prediction for CodingQuarry_transcript_37447-T1
Valid prediction for GlimmerHMM_glimmerT_53404-T1
Valid prediction for GlimmerHMM_glimmerT_53409-T1
Valid prediction for pasa_asmbl_33223.p1
Valid prediction for snap_scaffold_24-snap.2308-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 25242, rend_intergenic: 24421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 153164
-exon list size: 171


building trellis

0.6    
1.2    
1.7    
2.3    
2.9    
3.5    
4.0    
4.6    
5.2    
5.8    
6.4    
6.9    
7.5    
8.1    
8.7    
9.2    
9.8    
10.4    
11.0    
11.6    
12.1    
12.7    
13.3    
13.9    
14.5    
15.0    
15.6    
16.2    
16.8    
17.3    
17.9    
18.5    
19.1    
19.7    
20.2    
20.8    
21.4    
22.0    
22.5    
23.1    
23.7    
24.3    
24.9    
25.4    
26.0    
26.6    
27.2    
27.7    
28.3    
28.9    
29.5    
30.1    
30.6    
31.2    
31.8    
32.4    
32.9    
33.5    
34.1    
34.7    
35.3    
35.8    
36.4    
37.0    
37.6    
38.2    
38.7    
39.3    
39.9    
40.5    
41.0    
41.6    
42.2    
42.8    
43.4    
43.9    
44.5    
45.1    
45.7    
46.2    
46.8    
47.4    
48.0    
48.6    
49.1    
49.7    
50.3    
50.9    
51.4    
52.0    
52.6    
53.2    
53.8    
54.3    
54.9    
55.5    
56.1    
56.6    
57.2    
57.8    
58.4    
59.0    
59.5    
60.1    
60.7    
61.3    
61.8    
62.4    
63.0    
63.6    
64.2    
64.7    
65.3    
65.9    
66.5    
67.1    
67.6    
68.2    
68.8    
69.4    
69.9    
70.5    
71.1    
71.7    
72.3    
72.8    
73.4    
74.0    
74.6    
75.1    
75.7    
76.3    
76.9    
77.5    
78.0    
78.6    
79.2    
79.8    
80.3    
80.9    
81.5    
82.1    
82.7    
83.2    
83.8    
84.4    
85.0    
85.5    
86.1    
86.7    
87.3    
87.9    
88.4    
89.0    
89.6    
90.2    
90.8    
91.3    
91.9    
92.5    
93.1    
93.6    
94.2    
94.8    
95.4    
96.0    
96.5    
97.1    
97.7    
98.3    
98.8    
99.4    
-found 27 predictions from path traversal
Error with prediction: snap lend_intergenic: 25242, rend_intergenic: 24421  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 22 predictions persist after filtering for low support