-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_21/scaffold_21_1025796-1196507

-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_21-snap.176-T1
Valid prediction for GeneMark_model.83838_t
Valid prediction for snap_scaffold_21-snap.194-T1
Valid prediction for snap_scaffold_21-snap.184-T1
Valid prediction for GlimmerHMM_glimmerT_48238-T1
Valid prediction for GeneMark_model.83832_t
Valid prediction for GlimmerHMM_glimmerT_48236-T1
Valid prediction for GlimmerHMM_glimmerT_48246-T1
Valid prediction for GlimmerHMM_glimmerT_48254-T1
Valid prediction for GlimmerHMM_glimmerT_48235-T1
Valid prediction for snap_scaffold_21-snap.185-T1
Sorry, intron length (9) is less than minimum required (10)
Valid prediction for Augustus_model.g32256.t1
Valid prediction for GeneMark_model.83844_t
Valid prediction for GlimmerHMM_glimmerT_48233-T1
Valid prediction for GeneMark_model.83842_t
Valid prediction for GeneMark_model.83845_t
Valid prediction for HiQ_model.g32257.t1
Valid prediction for snap_scaffold_21-snap.175-T1
Valid prediction for GeneMark_model.83830_t
Valid prediction for pasa_asmbl_28350.p1
Couldn't classify 49438, 49555
Sorry, prediction pasa_asmbl_28349.p1 fails validation.
(CAG)	 CT	49438-49555	GT	AGG
(ACT)	 AG	49896-49975	GT	AGG
(GGT)	 AG	50918-51033	GT	CTG
(GTG)	 AG	51261-51291	AG	AAA
-recovered pasa_asmbl_28349.p1, terminal, 51261, 51291
-recovered pasa_asmbl_28349.p1, internal, 49896, 49975
-recovered pasa_asmbl_28349.p1, internal, 50918, 51033
Valid prediction for HiQ_model.g32259.t1
Valid prediction for GlimmerHMM_glimmerT_48241-T1
Valid prediction for HiQ_model.g32271.t1
Valid prediction for GeneMark_model.83831_t
Valid prediction for pasa_asmbl_28353.p1
Valid prediction for GlimmerHMM_glimmerT_48251-T1
Valid prediction for Augustus_model.g32278.t1
Valid prediction for snap_scaffold_21-snap.192-T1
Valid prediction for GlimmerHMM_glimmerT_48250-T1
Valid prediction for GeneMark_model.83833_t
Valid prediction for GlimmerHMM_glimmerT_48240-T1
Couldn't classify 22941, 23087
Couldn't classify 23239, 23258
Sorry, prediction CodingQuarry_transcript_32378-T1 fails validation.
(ATG)	 CC	20676-20745	GT	CGG
(AGG)	 AG	21000-21181	GT	AGG
(AGT)	 AG	22122-22271	GT	AGG
(GTG)	 AG	22524-22791	GT	AGG
(GGA)	 AG	22941-23087	TA	GGT
(TTA)	 GT	23239-23258	AG	GAA
-recovered CodingQuarry_transcript_32378-T1, initial, 20676, 20745
-recovered CodingQuarry_transcript_32378-T1, internal, 21000, 21181
-recovered CodingQuarry_transcript_32378-T1, internal, 22122, 22271
-recovered CodingQuarry_transcript_32378-T1, internal, 22524, 22791
Valid prediction for snap_scaffold_21-snap.188-T1
Valid prediction for snap_scaffold_21-snap.172-T1
Valid prediction for Augustus_model.g32266.t1
Valid prediction for snap_scaffold_21-snap.168-T1
Valid prediction for GlimmerHMM_glimmerT_48245-T1
Couldn't classify 42606, 42760
Couldn't classify 45361, 45450
Sorry, prediction pasa_asmbl_28347.p1 fails validation.
(ATG)	 TC	33407-33452	GT	AGG
(CTA)	 AG	36163-36283	GT	AGG
(GTT)	 AG	39019-39106	GT	ATG
(CTT)	 AG	40523-40587	GT	AGG
(GCT)	 AG	40858-41033	GT	CAG
(ACC)	 AG	42606-42760	AT	AGA
(ATC)	 AC	45361-45450	GT	AGG
-recovered pasa_asmbl_28347.p1, initial, 33407, 33452
-recovered pasa_asmbl_28347.p1, internal, 36163, 36283
-recovered pasa_asmbl_28347.p1, internal, 39019, 39106
-recovered pasa_asmbl_28347.p1, internal, 40523, 40587
-recovered pasa_asmbl_28347.p1, internal, 40858, 41033
Valid prediction for GeneMark_model.83837_t
Valid prediction for snap_scaffold_21-snap.193-T1
Valid prediction for snap_scaffold_21-snap.187-T1
Valid prediction for snap_scaffold_21-snap.177-T1
Valid prediction for snap_scaffold_21-snap.170-T1
Valid prediction for snap_scaffold_21-snap.174-T1
Valid prediction for GeneMark_model.83835_t
Valid prediction for Augustus_model.g32260.t1
Valid prediction for snap_scaffold_21-snap.169-T1
Valid prediction for HiQ_model.g32275.t1
Valid prediction for snap_scaffold_21-snap.178-T1
Valid prediction for snap_scaffold_21-snap.181-T1
Valid prediction for snap_scaffold_21-snap.196-T1
Valid prediction for GeneMark_model.83847_t
Valid prediction for GlimmerHMM_glimmerT_48230-T1
Valid prediction for snap_scaffold_21-snap.186-T1
Valid prediction for CodingQuarry_transcript_32382-T1
Valid prediction for snap_scaffold_21-snap.180-T1
Valid prediction for Augustus_model.g32262.t1
Valid prediction for snap_scaffold_21-snap.199-T1
Valid prediction for GlimmerHMM_glimmerT_48247-T1
Valid prediction for GlimmerHMM_glimmerT_48231-T1
Valid prediction for HiQ_model.g32276.t1
Valid prediction for Augustus_model.g32264.t1
Valid prediction for GeneMark_model.83827_t
Valid prediction for CodingQuarry_transcript_32381-T1
Couldn't classify 138925, 138978
Sorry, prediction pasa_asmbl_28356.p1 fails validation.
(CAA)	 AG	138925-138978	GT	AGG
(GCG)	 AG	139241-139521	GT	AAG
(ATA)	 AG	139624-139797	GT	AGG
(GCG)	 AG	140248-140419	GT	AGG
(GTC)	 AG	141666-141742	GT	AGG
(GTA)	 AG	142507-142652	GT	CGG
(GTT)	 AG	143146-143567	AC	AGA
-recovered pasa_asmbl_28356.p1, terminal, 143146, 143567
-recovered pasa_asmbl_28356.p1, internal, 138925, 138978
-recovered pasa_asmbl_28356.p1, internal, 139241, 139521
-recovered pasa_asmbl_28356.p1, internal, 139624, 139797
-recovered pasa_asmbl_28356.p1, internal, 140248, 140419
-recovered pasa_asmbl_28356.p1, internal, 141666, 141742
-recovered pasa_asmbl_28356.p1, internal, 142507, 142652
Valid prediction for CodingQuarry_transcript_32380-T1
Valid prediction for GlimmerHMM_glimmerT_48234-T1
Valid prediction for GeneMark_model.83834_t
Valid prediction for pasa_asmbl_28343.p1
Valid prediction for Augustus_model.g32270.t1
Valid prediction for Augustus_model.g32272.t1
Valid prediction for GeneMark_model.83848_t
Valid prediction for Augustus_model.g32261.t1
Valid prediction for GeneMark_model.83841_t
Valid prediction for GlimmerHMM_glimmerT_48237-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 GlimmerHMM_glimmerT_48242-T1
Valid prediction for GlimmerHMM_glimmerT_48257-T1
Valid prediction for Augustus_model.g32258.t1
Valid prediction for snap_scaffold_21-snap.173-T1
Valid prediction for GeneMark_model.83839_t
Valid prediction for GeneMark_model.83846_t
Valid prediction for GlimmerHMM_glimmerT_48252-T1
Valid prediction for snap_scaffold_21-snap.191-T1
Sorry, intron length (7) is less than minimum required (10)
Couldn't classify 14006, 14223
Couldn't classify 14416, 14551
Sorry, prediction pasa_asmbl_27420.p1 fails validation.
(CGC)	 GC	14006-14223	GT	GGG
(CTA)	 AG	14416-14551	AC	CCA
Valid prediction for CodingQuarry_transcript_32383-T1
Valid prediction for GlimmerHMM_glimmerT_48244-T1
Couldn't classify 706, 918
Sorry, prediction pasa_asmbl_27422.p1 fails validation.
(TCA)	 GC	706-918	GT	AGG
(GCC)	 AG	1086-1154	GT	ATG
(GAG)	 AG	1241-1311	GT	AGG
(TGC)	 AG	1440-1554	GT	AGG
(TTC)	 AG	1813-1902	GT	AGG
(GCA)	 AG	2262-2348	GT	AGG
(GCC)	 AG	2884-2916	GT	AGG
(GCA)	 AG	3119-3196	GT	AGG
(ACG)	 AG	3809-3943	GT	AGG
(GAG)	 AG	4129-4194	GT	AGG
(CTG)	 AG	4553-4617	GT	AGG
(GCT)	 AG	5020-5104	GT	GCG
(GTG)	 AG	5231-5307	GT	AGG
(GTT)	 AG	5700-5781	CC	GAC
-recovered pasa_asmbl_27422.p1, terminal, 5700, 5781
-recovered pasa_asmbl_27422.p1, internal, 1086, 1154
-recovered pasa_asmbl_27422.p1, internal, 1241, 1311
-recovered pasa_asmbl_27422.p1, internal, 1440, 1554
-recovered pasa_asmbl_27422.p1, internal, 1813, 1902
-recovered pasa_asmbl_27422.p1, internal, 2262, 2348
-recovered pasa_asmbl_27422.p1, internal, 2884, 2916
-recovered pasa_asmbl_27422.p1, internal, 3119, 3196
-recovered pasa_asmbl_27422.p1, internal, 3809, 3943
-recovered pasa_asmbl_27422.p1, internal, 4129, 4194
-recovered pasa_asmbl_27422.p1, internal, 4553, 4617
-recovered pasa_asmbl_27422.p1, internal, 5020, 5104
-recovered pasa_asmbl_27422.p1, internal, 5231, 5307
Valid prediction for Augustus_model.g32279.t1
Valid prediction for GlimmerHMM_glimmerT_48249-T1
Valid prediction for GlimmerHMM_glimmerT_48253-T1
Valid prediction for GeneMark_model.83829_t
Valid prediction for Augustus_model.g32255.t1
Valid prediction for snap_scaffold_21-snap.197-T1
Couldn't classify 22054, 22156
Sorry, prediction pasa_asmbl_27413.p2 fails validation.
(ATG)	 AG	21094-21161	GT	CAG
(TCT)	 AG	21270-21317	GT	CGG
(TAT)	 AG	21613-21771	GT	GGG
(GTT)	 AG	22054-22156	GC	GAG
-recovered pasa_asmbl_27413.p2, initial, 21094, 21161
-recovered pasa_asmbl_27413.p2, internal, 21094, 21161
-recovered pasa_asmbl_27413.p2, internal, 21270, 21317
-recovered pasa_asmbl_27413.p2, internal, 21613, 21771
-recovered pasa_asmbl_27413.p2, internal, 22054, 22156
Valid prediction for CodingQuarry_transcript_32385-T1
Couldn't classify 22623, 22634
Sorry, prediction pasa_asmbl_27409.p1 fails validation.
(ACC)	 TC	22623-22634	GT	TGG
(GTT)	 AG	22766-22829	GT	AGG
(ATC)	 AG	22953-23017	GT	GGG
(GAA)	 AG	23121-23181	GT	CAG
(GCG)	 AG	23411-23492	GT	GAG
(GGA)	 AG	23624-23712	GT	AGG
(GGA)	 AG	23870-23931	GT	AGG
(GAC)	 AG	24256-24336	GT	AGG
(AGC)	 AG	24565-24670	GT	TGG
(GTG)	 AG	24766-24863	GT	AGG
(GTG)	 AG	25058-25153	GT	CCG
(GGC)	 AG	25276-25346	GT	AGG
(GCT)	 AG	25440-25545	CG	AGC
-recovered pasa_asmbl_27409.p1, terminal, 25440, 25545
-recovered pasa_asmbl_27409.p1, internal, 22766, 22829
-recovered pasa_asmbl_27409.p1, internal, 22953, 23017
-recovered pasa_asmbl_27409.p1, internal, 23121, 23181
-recovered pasa_asmbl_27409.p1, internal, 23411, 23492
-recovered pasa_asmbl_27409.p1, internal, 23624, 23712
-recovered pasa_asmbl_27409.p1, internal, 23870, 23931
-recovered pasa_asmbl_27409.p1, internal, 24256, 24336
-recovered pasa_asmbl_27409.p1, internal, 24565, 24670
-recovered pasa_asmbl_27409.p1, internal, 24766, 24863
-recovered pasa_asmbl_27409.p1, internal, 25058, 25153
-recovered pasa_asmbl_27409.p1, internal, 25276, 25346
Valid prediction for pasa_asmbl_27397.p1
Couldn't classify 12322, 12675
Sorry, prediction pasa_asmbl_27421.p1 fails validation.
(GAC)	 AG	12322-12675	AG	CCA
Valid prediction for snap_scaffold_21-snap.171-T1
Valid prediction for GlimmerHMM_glimmerT_48239-T1
Couldn't classify 75682, 76602
Sorry, prediction pasa_asmbl_29012.p1 fails validation.
(GGG)	 GG	75682-76602	TC	TCT
Valid prediction for GeneMark_model.83849_t
Valid prediction for GeneMark_model.83836_t
Valid prediction for Augustus_model.g32265.t1
Valid prediction for GeneMark_model.83850_t
Valid prediction for snap_scaffold_21-snap.183-T1
Valid prediction for GlimmerHMM_glimmerT_48243-T1
Valid prediction for Augustus_model.g32273.t1
Valid prediction for GlimmerHMM_glimmerT_48255-T1
Valid prediction for Augustus_model.g32263.t1
Valid prediction for GlimmerHMM_glimmerT_48256-T1
Valid prediction for GlimmerHMM_glimmerT_48229-T1
Valid prediction for snap_scaffold_21-snap.195-T1
Valid prediction for GlimmerHMM_glimmerT_48232-T1
Valid prediction for snap_scaffold_21-snap.182-T1
Valid prediction for snap_scaffold_21-snap.189-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for Augustus_model.g32267.t1
Valid prediction for HiQ_model.g32280.t1
Valid prediction for GeneMark_model.83828_t
Valid prediction for snap_scaffold_21-snap.190-T1
Valid prediction for GeneMark_model.83843_t
Valid prediction for snap_scaffold_21-snap.179-T1
Valid prediction for Augustus_model.g32277.t1
Couldn't classify 14852, 14965
Couldn't classify 15100, 15498
Sorry, prediction pasa_asmbl_27419.p1 fails validation.
(GGC)	 CA	14852-14965	GT	AGG
(GTG)	 AG	15100-15498	CG	GCC
Valid prediction for CodingQuarry_transcript_32379-T1
Valid prediction for snap_scaffold_21-snap.198-T1
Valid prediction for GeneMark_model.83840_t
Valid prediction for Augustus_model.g32274.t1
Valid prediction for Augustus_model.g32268.t1
Valid prediction for Augustus_model.g32269.t1
Valid prediction for GlimmerHMM_glimmerT_48248-T1

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 135638, rend_intergenic: 133007  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169854, rend_intergenic: 165342  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 170712
-exon list size: 421


building trellis

0.2    
0.5    
0.7    
0.9    
1.2    
1.4    
1.7    
1.9    
2.1    
2.4    
2.6    
2.8    
3.1    
3.3    
3.5    
3.8    
4.0    
4.3    
4.5    
4.7    
5.0    
5.2    
5.4    
5.7    
5.9    
6.1    
6.4    
6.6    
6.9    
7.1    
7.3    
7.6    
7.8    
8.0    
8.3    
8.5    
8.7    
9.0    
9.2    
9.5    
9.7    
9.9    
10.2    
10.4    
10.6    
10.9    
11.1    
11.3    
11.6    
11.8    
12.1    
12.3    
12.5    
12.8    
13.0    
13.2    
13.5    
13.7    
13.9    
14.2    
14.4    
14.7    
14.9    
15.1    
15.4    
15.6    
15.8    
16.1    
16.3    
16.5    
16.8    
17.0    
17.3    
17.5    
17.7    
18.0    
18.2    
18.4    
18.7    
18.9    
19.1    
19.4    
19.6    
19.9    
20.1    
20.3    
20.6    
20.8    
21.0    
21.3    
21.5    
21.7    
22.0    
22.2    
22.5    
22.7    
22.9    
23.2    
23.4    
23.6    
23.9    
24.1    
24.3    
24.6    
24.8    
25.1    
25.3    
25.5    
25.8    
26.0    
26.2    
26.5    
26.7    
27.0    
27.2    
27.4    
27.7    
27.9    
28.1    
28.4    
28.6    
28.8    
29.1    
29.3    
29.6    
29.8    
30.0    
30.3    
30.5    
30.7    
31.0    
31.2    
31.4    
31.7    
31.9    
32.2    
32.4    
32.6    
32.9    
33.1    
33.3    
33.6    
33.8    
34.0    
34.3    
34.5    
34.8    
35.0    
35.2    
35.5    
35.7    
35.9    
36.2    
36.4    
36.6    
36.9    
37.1    
37.4    
37.6    
37.8    
38.1    
38.3    
38.5    
38.8    
39.0    
39.2    
39.5    
39.7    
40.0    
40.2    
40.4    
40.7    
40.9    
41.1    
41.4    
41.6    
41.8    
42.1    
42.3    
42.6    
42.8    
43.0    
43.3    
43.5    
43.7    
44.0    
44.2    
44.4    
44.7    
44.9    
45.2    
45.4    
45.6    
45.9    
46.1    
46.3    
46.6    
46.8    
47.0    
47.3    
47.5    
47.8    
48.0    
48.2    
48.5    
48.7    
48.9    
49.2    
49.4    
49.6    
49.9    
50.1    
50.4    
50.6    
50.8    
51.1    
51.3    
51.5    
51.8    
52.0    
52.2    
52.5    
52.7    
53.0    
53.2    
53.4    
53.7    
53.9    
54.1    
54.4    
54.6    
54.8    
55.1    
55.3    
55.6    
55.8    
56.0    
56.3    
56.5    
56.7    
57.0    
57.2    
57.4    
57.7    
57.9    
58.2    
58.4    
58.6    
58.9    
59.1    
59.3    
59.6    
59.8    
60.0    
60.3    
60.5    
60.8    
61.0    
61.2    
61.5    
61.7    
61.9    
62.2    
62.4    
62.6    
62.9    
63.1    
63.4    
63.6    
63.8    
64.1    
64.3    
64.5    
64.8    
65.0    
65.2    
65.5    
65.7    
66.0    
66.2    
66.4    
66.7    
66.9    
67.1    
67.4    
67.6    
67.8    
68.1    
68.3    
68.6    
68.8    
69.0    
69.3    
69.5    
69.7    
70.0    
70.2    
70.4    
70.7    
70.9    
71.2    
71.4    
71.6    
71.9    
72.1    
72.3    
72.6    
72.8    
73.0    
73.3    
73.5    
73.8    
74.0    
74.2    
74.5    
74.7    
74.9    
75.2    
75.4    
75.7    
75.9    
76.1    
76.4    
76.6    
76.8    
77.1    
77.3    
77.5    
77.8    
78.0    
78.3    
78.5    
78.7    
79.0    
79.2    
79.4    
79.7    
79.9    
80.1    
80.4    
80.6    
80.9    
81.1    
81.3    
81.6    
81.8    
82.0    
82.3    
82.5    
82.7    
83.0    
83.2    
83.5    
83.7    
83.9    
84.2    
84.4    
84.6    
84.9    
85.1    
85.3    
85.6    
85.8    
86.1    
86.3    
86.5    
86.8    
87.0    
87.2    
87.5    
87.7    
87.9    
88.2    
88.4    
88.7    
88.9    
89.1    
89.4    
89.6    
89.8    
90.1    
90.3    
90.5    
90.8    
91.0    
91.3    
91.5    
91.7    
92.0    
92.2    
92.4    
92.7    
92.9    
93.1    
93.4    
93.6    
93.9    
94.1    
94.3    
94.6    
94.8    
95.0    
95.3    
95.5    
95.7    
96.0    
96.2    
96.5    
96.7    
96.9    
97.2    
97.4    
97.6    
97.9    
98.1    
98.3    
98.6    
98.8    
99.1    
99.3    
99.5    
99.8    
-found 29 predictions from path traversal
Error with prediction: snap lend_intergenic: 135638, rend_intergenic: 133007  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 169854, rend_intergenic: 165342  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 28 predictions persist after filtering for low support