-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_26/scaffold_26_10028480-10171244

-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_26-snap.2245-T1
Valid prediction for GeneMark_model.100671_t
Valid prediction for GeneMark_model.100689_t
Valid prediction for snap_scaffold_26-snap.2255-T1
Valid prediction for GlimmerHMM_glimmerT_57796-T1
Valid prediction for GlimmerHMM_glimmerT_57801-T1
Valid prediction for GlimmerHMM_glimmerT_57818-T1
Valid prediction for snap_scaffold_26-snap.2254-T1
Valid prediction for GlimmerHMM_glimmerT_57815-T1
Valid prediction for GeneMark_model.100690_t
Valid prediction for GeneMark_model.100686_t
Valid prediction for GlimmerHMM_glimmerT_57822-T1
Valid prediction for GlimmerHMM_glimmerT_57805-T1
Valid prediction for GlimmerHMM_glimmerT_57821-T1
Valid prediction for GlimmerHMM_glimmerT_57807-T1
Valid prediction for snap_scaffold_26-snap.2260-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for snap_scaffold_26-snap.2239-T1
Valid prediction for snap_scaffold_26-snap.2238-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GeneMark_model.100683_t
Couldn't classify 142579, 142739
Sorry, prediction GeneMark_model.100691_t fails validation.
(ATG)	 CA	137197-137222	GT	GGG
(ACC)	 AG	140073-140681	GT	GAG
(GAG)	 AG	141124-141154	GT	TGG
(GTG)	 AG	141185-141439	GT	CTG
(CGT)	 AG	141575-141670	GT	GCG
(GCC)	 AG	141693-142081	GT	ACG
(GTC)	 AG	142109-142211	GT	TCG
(CGT)	 AG	142312-142446	GT	TGG
(GGT)	 AG	142579-142739	GT	CGG
-recovered GeneMark_model.100691_t, initial, 137197, 137222
-recovered GeneMark_model.100691_t, internal, 140073, 140681
-recovered GeneMark_model.100691_t, internal, 141124, 141154
-recovered GeneMark_model.100691_t, internal, 141185, 141439
-recovered GeneMark_model.100691_t, internal, 141575, 141670
-recovered GeneMark_model.100691_t, internal, 141693, 142081
-recovered GeneMark_model.100691_t, internal, 142109, 142211
-recovered GeneMark_model.100691_t, internal, 142312, 142446
-recovered GeneMark_model.100691_t, internal, 142579, 142739
Valid prediction for GlimmerHMM_glimmerT_57811-T1
Valid prediction for snap_scaffold_26-snap.2237-T1
Valid prediction for GeneMark_model.100676_t
Valid prediction for snap_scaffold_26-snap.2244-T1
Valid prediction for snap_scaffold_26-snap.2263-T1
Valid prediction for snap_scaffold_26-snap.2264-T1
Valid prediction for snap_scaffold_26-snap.2256-T1
Valid prediction for snap_scaffold_26-snap.2248-T1
Valid prediction for snap_scaffold_26-snap.2259-T1
Valid prediction for snap_scaffold_26-snap.2243-T1
Valid prediction for GeneMark_model.100672_t
Valid prediction for GlimmerHMM_glimmerT_57802-T1
Valid prediction for GeneMark_model.100679_t
Valid prediction for GlimmerHMM_glimmerT_57810-T1
Valid prediction for GlimmerHMM_glimmerT_57809-T1
Valid prediction for GeneMark_model.100677_t
Valid prediction for GlimmerHMM_glimmerT_57820-T1
Valid prediction for GeneMark_model.100684_t

-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 GeneMark_model.100687_t
Valid prediction for GlimmerHMM_glimmerT_57808-T1
Valid prediction for snap_scaffold_26-snap.2250-T1
Valid prediction for snap_scaffold_26-snap.2247-T1
Sorry, intron length (6) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_57800-T1
Valid prediction for GeneMark_model.100673_t
Valid prediction for GeneMark_model.100682_t
Valid prediction for GlimmerHMM_glimmerT_57813-T1
Valid prediction for pasa_asmbl_35092.p1
Valid prediction for GeneMark_model.100678_t
Valid prediction for snap_scaffold_26-snap.2249-T1
Valid prediction for snap_scaffold_26-snap.2253-T1
Couldn't classify 57028, 57042
Sorry, prediction pasa_asmbl_35085.p1 fails validation.
(ATG)	 TC	53700-53762	GT	AGG
(GCC)	 AG	54177-54319	GT	CGG
(GCC)	 AG	55568-55643	GT	TAG
(GTG)	 AG	55770-55813	GT	TGG
(TGT)	 AG	55975-56045	GT	TGG
(GCA)	 AG	56169-56233	GT	AGG
(AGA)	 AG	56786-56830	GT	AAG
(CTA)	 AG	57028-57042	TA	CCT
-recovered pasa_asmbl_35085.p1, initial, 53700, 53762
-recovered pasa_asmbl_35085.p1, internal, 54177, 54319
-recovered pasa_asmbl_35085.p1, internal, 55568, 55643
-recovered pasa_asmbl_35085.p1, internal, 55770, 55813
-recovered pasa_asmbl_35085.p1, internal, 55975, 56045
-recovered pasa_asmbl_35085.p1, internal, 56169, 56233
-recovered pasa_asmbl_35085.p1, internal, 56786, 56830
Valid prediction for GlimmerHMM_glimmerT_57799-T1
Valid prediction for snap_scaffold_26-snap.2265-T1
Valid prediction for snap_scaffold_26-snap.2240-T1
Valid prediction for GlimmerHMM_glimmerT_57817-T1
Valid prediction for GlimmerHMM_glimmerT_57797-T1
Couldn't classify 27170, 27363
Sorry, prediction pasa_asmbl_35095.p1 fails validation.
(CTT)	 AT	27170-27363	GT	AGG
(GGT)	 AG	27616-27742	GT	AGG
(GTA)	 AG	28829-29017	GT	AGG
(GAG)	 AG	29221-29596	GT	CGG
(GTG)	 AG	29845-29975	GT	AGG
(GTA)	 AG	30060-30518	GA	GAG
-recovered pasa_asmbl_35095.p1, terminal, 30060, 30518
-recovered pasa_asmbl_35095.p1, internal, 27616, 27742
-recovered pasa_asmbl_35095.p1, internal, 28829, 29017
-recovered pasa_asmbl_35095.p1, internal, 29221, 29596
-recovered pasa_asmbl_35095.p1, internal, 29845, 29975
Valid prediction for GlimmerHMM_glimmerT_57804-T1
Valid prediction for GlimmerHMM_glimmerT_57806-T1
Valid prediction for snap_scaffold_26-snap.2258-T1
Valid prediction for GlimmerHMM_glimmerT_57814-T1
Valid prediction for GeneMark_model.100685_t
Valid prediction for snap_scaffold_26-snap.2241-T1
Valid prediction for snap_scaffold_26-snap.2261-T1
Valid prediction for GlimmerHMM_glimmerT_57816-T1
Valid prediction for CodingQuarry_transcript_40365-T1
Valid prediction for CodingQuarry_transcript_40364-T1
Valid prediction for GeneMark_model.100674_t
Couldn't classify 67965, 68073
Sorry, prediction pasa_asmbl_35079.p1 fails validation.
(AGG)	 CC	67965-68073	GT	TGG
(GCC)	 AG	68328-68545	GT	AGG
(TTT)	 AG	68678-68830	GT	GGG
(GAG)	 AG	69224-69283	GT	CTG
(GAT)	 AG	69446-69496	GT	AAG
(TAC)	 AG	69595-69734	GT	AGG
(CCT)	 AG	72244-72325	GT	AGG
(TCC)	 AG	73536-73644	GT	AGG
(CAC)	 AG	74097-74304	GT	AGG
(GAA)	 AG	76680-76755	GG	AGG
-recovered pasa_asmbl_35079.p1, terminal, 76680, 76755
-recovered pasa_asmbl_35079.p1, internal, 68328, 68545
-recovered pasa_asmbl_35079.p1, internal, 68678, 68830
-recovered pasa_asmbl_35079.p1, internal, 69224, 69283
-recovered pasa_asmbl_35079.p1, internal, 69446, 69496
-recovered pasa_asmbl_35079.p1, internal, 69595, 69734
-recovered pasa_asmbl_35079.p1, internal, 72244, 72325
-recovered pasa_asmbl_35079.p1, internal, 73536, 73644
-recovered pasa_asmbl_35079.p1, internal, 74097, 74304
Valid prediction for GlimmerHMM_glimmerT_57803-T1
Valid prediction for GlimmerHMM_glimmerT_57823-T1
Valid prediction for GeneMark_model.100675_t
Valid prediction for snap_scaffold_26-snap.2252-T1
Valid prediction for snap_scaffold_26-snap.2246-T1
Valid prediction for GeneMark_model.100681_t
Valid prediction for CodingQuarry_transcript_40366-T1
Valid prediction for snap_scaffold_26-snap.2257-T1
Valid prediction for CodingQuarry_transcript_40368-T1
Valid prediction for CodingQuarry_transcript_40367-T1
Valid prediction for GlimmerHMM_glimmerT_57812-T1
Valid prediction for snap_scaffold_26-snap.2242-T1
Valid prediction for GlimmerHMM_glimmerT_57795-T1
Valid prediction for GlimmerHMM_glimmerT_57798-T1
Valid prediction for snap_scaffold_26-snap.2262-T1
Valid prediction for snap_scaffold_26-snap.2251-T1
Valid prediction for GlimmerHMM_glimmerT_57819-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 120680, rend_intergenic: 118968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 142765
-exon list size: 292


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    
4.8    
5.1    
5.4    
5.8    
6.1    
6.5    
6.8    
7.1    
7.5    
7.8    
8.2    
8.5    
8.8    
9.2    
9.5    
9.9    
10.2    
10.5    
10.9    
11.2    
11.6    
11.9    
12.2    
12.6    
12.9    
13.3    
13.6    
13.9    
14.3    
14.6    
15.0    
15.3    
15.6    
16.0    
16.3    
16.7    
17.0    
17.3    
17.7    
18.0    
18.4    
18.7    
19.0    
19.4    
19.7    
20.1    
20.4    
20.7    
21.1    
21.4    
21.8    
22.1    
22.4    
22.8    
23.1    
23.5    
23.8    
24.1    
24.5    
24.8    
25.2    
25.5    
25.9    
26.2    
26.5    
26.9    
27.2    
27.6    
27.9    
28.2    
28.6    
28.9    
29.3    
29.6    
29.9    
30.3    
30.6    
31.0    
31.3    
31.6    
32.0    
32.3    
32.7    
33.0    
33.3    
33.7    
34.0    
34.4    
34.7    
35.0    
35.4    
35.7    
36.1    
36.4    
36.7    
37.1    
37.4    
37.8    
38.1    
38.4    
38.8    
39.1    
39.5    
39.8    
40.1    
40.5    
40.8    
41.2    
41.5    
41.8    
42.2    
42.5    
42.9    
43.2    
43.5    
43.9    
44.2    
44.6    
44.9    
45.2    
45.6    
45.9    
46.3    
46.6    
46.9    
47.3    
47.6    
48.0    
48.3    
48.6    
49.0    
49.3    
49.7    
50.0    
50.3    
50.7    
51.0    
51.4    
51.7    
52.0    
52.4    
52.7    
53.1    
53.4    
53.7    
54.1    
54.4    
54.8    
55.1    
55.4    
55.8    
56.1    
56.5    
56.8    
57.1    
57.5    
57.8    
58.2    
58.5    
58.8    
59.2    
59.5    
59.9    
60.2    
60.5    
60.9    
61.2    
61.6    
61.9    
62.2    
62.6    
62.9    
63.3    
63.6    
63.9    
64.3    
64.6    
65.0    
65.3    
65.6    
66.0    
66.3    
66.7    
67.0    
67.3    
67.7    
68.0    
68.4    
68.7    
69.0    
69.4    
69.7    
70.1    
70.4    
70.7    
71.1    
71.4    
71.8    
72.1    
72.4    
72.8    
73.1    
73.5    
73.8    
74.1    
74.5    
74.8    
75.2    
75.5    
75.9    
76.2    
76.5    
76.9    
77.2    
77.6    
77.9    
78.2    
78.6    
78.9    
79.3    
79.6    
79.9    
80.3    
80.6    
81.0    
81.3    
81.6    
82.0    
82.3    
82.7    
83.0    
83.3    
83.7    
84.0    
84.4    
84.7    
85.0    
85.4    
85.7    
86.1    
86.4    
86.7    
87.1    
87.4    
87.8    
88.1    
88.4    
88.8    
89.1    
89.5    
89.8    
90.1    
90.5    
90.8    
91.2    
91.5    
91.8    
92.2    
92.5    
92.9    
93.2    
93.5    
93.9    
94.2    
94.6    
94.9    
95.2    
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 31 predictions from path traversal
Error with prediction: snap lend_intergenic: 120680, rend_intergenic: 118968  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
GOT 5prime partial gene.

-reporting highest scoring path thru the trellis.
-found 29 predictions persist after filtering for low support