-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_3/scaffold_3_14311409-14593898

-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 HiQ_model.g5251.t1
Valid prediction for GeneMark_model.12906_t
Valid prediction for pasa_asmbl_40481.p1
Valid prediction for GeneMark_model.12882_t
Valid prediction for GlimmerHMM_glimmerT_7930-T1
Valid prediction for Augustus_model.g5244.t1
Valid prediction for HiQ_model.g5240.t1
Valid prediction for GeneMark_model.12911_t
Valid prediction for HiQ_model.g5261.t1
Valid prediction for GeneMark_model.12898_t
Valid prediction for snap_scaffold_3-snap.2767-T1
Valid prediction for Augustus_model.g5258.t1
Valid prediction for GlimmerHMM_glimmerT_7932-T1
Valid prediction for snap_scaffold_3-snap.2783-T1
Valid prediction for Augustus_model.g5242.t1
Valid prediction for GlimmerHMM_glimmerT_7910-T1
Valid prediction for snap_scaffold_3-snap.2777-T1
Valid prediction for snap_scaffold_3-snap.2747-T1
Valid prediction for snap_scaffold_3-snap.2784-T1
Valid prediction for GeneMark_model.12901_t
Valid prediction for pasa_asmbl_40492.p1
Valid prediction for snap_scaffold_3-snap.2769-T1
Valid prediction for GeneMark_model.12902_t
Valid prediction for CodingQuarry_transcript_46253-T1
Valid prediction for GlimmerHMM_glimmerT_7925-T1
Valid prediction for GlimmerHMM_glimmerT_7919-T1
Valid prediction for snap_scaffold_3-snap.2752-T1
Valid prediction for GlimmerHMM_glimmerT_7908-T1
Couldn't classify 160016, 160068
Sorry, prediction pasa_asmbl_40486.p1 fails validation.
(ATG)	 AC	155525-155590	GT	TGG
(GCT)	 AG	158231-158400	GT	ATG
(ATA)	 AG	158632-158782	GT	TGG
(GGT)	 AG	159244-159304	GT	AGG
(ATT)	 AG	159398-159492	GT	AGG
(GTA)	 AG	159739-159919	GT	AGG
(ACA)	 AG	160016-160068	CC	GCC
-recovered pasa_asmbl_40486.p1, initial, 155525, 155590
-recovered pasa_asmbl_40486.p1, internal, 158231, 158400
-recovered pasa_asmbl_40486.p1, internal, 158632, 158782
-recovered pasa_asmbl_40486.p1, internal, 159244, 159304
-recovered pasa_asmbl_40486.p1, internal, 159398, 159492
-recovered pasa_asmbl_40486.p1, internal, 159739, 159919
Valid prediction for GeneMark_model.12909_t
Valid prediction for GlimmerHMM_glimmerT_7927-T1
Valid prediction for GlimmerHMM_glimmerT_7936-T1
Valid prediction for GeneMark_model.12885_t
Valid prediction for Augustus_model.g5267.t1
Couldn't classify 191146, 192051
Sorry, prediction pasa_asmbl_39712.p1 fails validation.
(TGG)	 GC	191146-192051	TG	CTT
Valid prediction for snap_scaffold_3-snap.2765-T1
Valid prediction for snap_scaffold_3-snap.2748-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for GlimmerHMM_glimmerT_7917-T1
Valid prediction for snap_scaffold_3-snap.2774-T1
Valid prediction for GlimmerHMM_glimmerT_7924-T1
Valid prediction for HiQ_model.g5263.t1
Valid prediction for GeneMark_model.12893_t
Valid prediction for Augustus_model.g5254.t1
Valid prediction for Augustus_model.g5265.t1
Couldn't classify 83302, 83356
Sorry, prediction pasa_asmbl_40478.p1 fails validation.
(ATG)	 CA	81052-81366	GT	AGG
(GTT)	 AG	81453-81657	GT	AGG
(GTG)	 AG	81768-81916	GT	TGG
(GTT)	 AG	82137-82267	GT	TGG
(GAA)	 AG	83302-83356	GT	AGG
-recovered pasa_asmbl_40478.p1, initial, 81052, 81366
-recovered pasa_asmbl_40478.p1, internal, 81453, 81657
-recovered pasa_asmbl_40478.p1, internal, 81768, 81916
-recovered pasa_asmbl_40478.p1, internal, 82137, 82267
-recovered pasa_asmbl_40478.p1, internal, 83302, 83356
Valid prediction for GeneMark_model.12897_t
Valid prediction for snap_scaffold_3-snap.2750-T1
Valid prediction for CodingQuarry_transcript_46252-T1
Valid prediction for Augustus_model.g5247.t1
Valid prediction for GlimmerHMM_glimmerT_7922-T1
Valid prediction for GeneMark_model.12891_t
Valid prediction for GeneMark_model.12910_t
Valid prediction for snap_scaffold_3-snap.2760-T1
Valid prediction for GeneMark_model.12881_t
Valid prediction for GlimmerHMM_glimmerT_7912-T1
Valid prediction for GlimmerHMM_glimmerT_7934-T1
Valid prediction for snap_scaffold_3-snap.2753-T1
Valid prediction for snap_scaffold_3-snap.2763-T1
Valid prediction for snap_scaffold_3-snap.2770-T1
Valid prediction for GlimmerHMM_glimmerT_7913-T1
Valid prediction for CodingQuarry_transcript_46249-T1
Valid prediction for HiQ_model.g5256.t1
Valid prediction for Augustus_model.g5262.t1
Valid prediction for GeneMark_model.12895_t
Valid prediction for snap_scaffold_3-snap.2768-T1
Valid prediction for GeneMark_model.12886_t
Valid prediction for CodingQuarry_transcript_46245-T1
Valid prediction for GeneMark_model.12908_t
Valid prediction for GeneMark_model.12899_t
Valid prediction for GlimmerHMM_glimmerT_7915-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 GeneMark_model.12892_t
Couldn't classify 248656, 248683
Sorry, prediction pasa_asmbl_39674.p1 fails validation.
(AGG)	 CA	248656-248683	GT	TAG
(ATG)	 AG	249491-249651	GT	ATG
(GAA)	 AG	249879-250016	GT	GAG
-recovered pasa_asmbl_39674.p1, initial, 249491, 249651
-recovered pasa_asmbl_39674.p1, terminal, 249879, 250016
-recovered pasa_asmbl_39674.p1, internal, 249491, 249651
-recovered pasa_asmbl_39674.p1, internal, 249879, 250016
Valid prediction for GeneMark_model.12913_t
Valid prediction for GlimmerHMM_glimmerT_7909-T1
Valid prediction for snap_scaffold_3-snap.2761-T1
Couldn't classify 228384, 228457
Couldn't classify 229991, 230099
Sorry, prediction pasa_asmbl_39314.p1 fails validation.
(GAA)	 GC	228384-228457	GT	AGG
(CAA)	 AG	228738-228826	GT	GGG
(TAA)	 AG	228904-228997	GT	AGG
(GCC)	 AG	229134-229280	GT	GGG
(ATT)	 AG	229991-230099	GT	AGG
-recovered pasa_asmbl_39314.p1, internal, 228738, 228826
-recovered pasa_asmbl_39314.p1, internal, 228904, 228997
-recovered pasa_asmbl_39314.p1, internal, 229134, 229280
-recovered pasa_asmbl_39314.p1, internal, 229991, 230099
Valid prediction for snap_scaffold_3-snap.2782-T1
Valid prediction for GlimmerHMM_glimmerT_7939-T1
Valid prediction for snap_scaffold_3-snap.2744-T1
Valid prediction for CodingQuarry_transcript_46248-T1
Couldn't classify 152610, 152763
Couldn't classify 156360, 156454
Sorry, prediction pasa_asmbl_39739.p1 fails validation.
(AGT)	 CT	152610-152763	GT	TGG
(AAG)	 AG	153374-153551	GT	AGG
(GGA)	 AG	156176-156267	GT	ATG
(TGG)	 AG	156360-156454	TG	ACT
-recovered pasa_asmbl_39739.p1, internal, 153374, 153551
-recovered pasa_asmbl_39739.p1, internal, 156176, 156267
Valid prediction for CodingQuarry_transcript_46255-T1
Valid prediction for Augustus_model.g5255.t1
Valid prediction for Augustus_model.g5246.t1
Couldn't classify 173492, 174352
Sorry, prediction pasa_asmbl_40480.p1 fails validation.
(ACA)	 GC	173492-174352	CA	CAC
Valid prediction for snap_scaffold_3-snap.2756-T1
Valid prediction for GlimmerHMM_glimmerT_7929-T1
Couldn't classify 58129, 61053
Couldn't classify 67812, 67973
Sorry, prediction pasa_asmbl_39341.p1 fails validation.
(CGC)	 AC	58129-61053	GT	AGG
(ATG)	 AG	62305-62361	GT	AGG
(CGG)	 AG	63341-63497	GT	GGG
(GCG)	 AG	64368-64691	GT	TGG
(ATG)	 AG	65260-65538	GT	AGG
(CAG)	 AG	66494-66846	GT	AGG
(ATG)	 AG	67812-67973	GT	AGG
-recovered pasa_asmbl_39341.p1, initial, 62305, 62361
add_exon() Sorry, pasa_asmbl_39341.p1 65260-65538-initial-1 is invalid.
-recovered pasa_asmbl_39341.p1, initial, 65260, 65538
-recovered pasa_asmbl_39341.p1, initial, 67812, 67973
-recovered pasa_asmbl_39341.p1, internal, 62305, 62361
-recovered pasa_asmbl_39341.p1, internal, 63341, 63497
-recovered pasa_asmbl_39341.p1, internal, 64368, 64691
-recovered pasa_asmbl_39341.p1, internal, 65260, 65538
-recovered pasa_asmbl_39341.p1, internal, 66494, 66846
-recovered pasa_asmbl_39341.p1, internal, 67812, 67973
Couldn't classify 257592, 257708
Sorry, prediction pasa_asmbl_39310.p1 fails validation.
(GAC)	 TA	257592-257708	GT	AGG
(AGT)	 AG	259647-259716	GT	AGG
(GTC)	 AG	259875-260013	GT	AAG
(GGA)	 AG	260189-260273	AG	AGA
-recovered pasa_asmbl_39310.p1, terminal, 260189, 260273
-recovered pasa_asmbl_39310.p1, internal, 259647, 259716
-recovered pasa_asmbl_39310.p1, internal, 259875, 260013
Valid prediction for CodingQuarry_transcript_46258-T1
Valid prediction for GlimmerHMM_glimmerT_7921-T1
Valid prediction for GlimmerHMM_glimmerT_7918-T1
Couldn't classify 160470, 160640
Sorry, prediction pasa_asmbl_39318.p1 fails validation.
(GTG)	 TA	160470-160640	GT	TGG
(GAT)	 AG	160818-160877	GT	AGG
(CTT)	 AG	160999-161142	GT	AGG
(CTG)	 AG	161383-161474	GT	AGG
(CAC)	 AG	161810-162017	TC	AAT
-recovered pasa_asmbl_39318.p1, terminal, 161810, 162017
-recovered pasa_asmbl_39318.p1, internal, 160818, 160877
-recovered pasa_asmbl_39318.p1, internal, 160999, 161142
-recovered pasa_asmbl_39318.p1, internal, 161383, 161474
Valid prediction for CodingQuarry_transcript_46257-T1
Valid prediction for Augustus_model.g5250.t1
Valid prediction for GeneMark_model.12896_t
Valid prediction for snap_scaffold_3-snap.2762-T1
Couldn't classify 265282, 266713
Couldn't classify 269858, 270020
Sorry, prediction pasa_asmbl_39307.p1 fails validation.
(TTT)	 CC	265282-266713	GT	AGG
(GGT)	 AG	267102-267349	GT	ATG
(ACA)	 AG	267553-267634	GT	AAG
(ATA)	 AG	267780-267900	GT	AGG
(TTC)	 AG	268005-268195	GT	AGG
(GGC)	 AG	268546-268685	GT	TGG
(GTG)	 AG	268873-269070	GT	AGG
(GAT)	 AG	269484-269752	GT	CGG
(GGA)	 AG	269858-270020	GT	AGG
-recovered pasa_asmbl_39307.p1, internal, 267102, 267349
-recovered pasa_asmbl_39307.p1, internal, 267553, 267634
-recovered pasa_asmbl_39307.p1, internal, 267780, 267900
-recovered pasa_asmbl_39307.p1, internal, 268005, 268195
-recovered pasa_asmbl_39307.p1, internal, 268546, 268685
-recovered pasa_asmbl_39307.p1, internal, 268873, 269070
-recovered pasa_asmbl_39307.p1, internal, 269484, 269752
-recovered pasa_asmbl_39307.p1, internal, 269858, 270020
Valid prediction for snap_scaffold_3-snap.2745-T1
Valid prediction for GlimmerHMM_glimmerT_7928-T1
Valid prediction for snap_scaffold_3-snap.2755-T1
Sorry, intron length (4) is less than minimum required (10)
Valid prediction for snap_scaffold_3-snap.2766-T1
Valid prediction for GlimmerHMM_glimmerT_7926-T1
Couldn't classify 96036, 96134
Sorry, prediction pasa_asmbl_39326.p2 fails validation.
(CGT)	 TC	96036-96134	GT	TGG
(AGA)	 AG	97559-97712	GT	AGG
(ATG)	 AG	97852-97970	GT	AGG
(ATG)	 AG	98066-98179	GA	AAG
-recovered pasa_asmbl_39326.p2, initial, 97852, 97970
-recovered pasa_asmbl_39326.p2, terminal, 98066, 98179
-recovered pasa_asmbl_39326.p2, internal, 97559, 97712
-recovered pasa_asmbl_39326.p2, internal, 97852, 97970
Valid prediction for snap_scaffold_3-snap.2743-T1
Valid prediction for snap_scaffold_3-snap.2751-T1
Valid prediction for CodingQuarry_transcript_46256-T1
Valid prediction for Augustus_model.g5249.t1
Valid prediction for CodingQuarry_transcript_46262-T1
Couldn't classify 135231, 135310
Couldn't classify 144257, 144430
Sorry, prediction pasa_asmbl_39324.p1 fails validation.
(GAA)	 TG	135231-135310	GT	AGG
(ATT)	 AG	137055-137184	GT	AGG
(GTG)	 AG	137284-137349	GT	AGG
(ACA)	 AG	137441-137540	GT	TGG
(AGA)	 AG	138893-139017	GT	GGG
(GGT)	 AG	139253-139323	GT	AAG
(GTT)	 AG	142219-142335	GT	TGG
(GAG)	 AG	142430-142518	GT	AGG
(GTA)	 AG	142646-142804	GT	CAG
(AGA)	 AG	143793-143852	GT	AGG
(ATG)	 AG	144042-144157	GT	ATG
(TTA)	 AG	144257-144430	AG	AGA
add_exon() Sorry, pasa_asmbl_39324.p1 144042-144157-initial-1 is invalid.
-recovered pasa_asmbl_39324.p1, initial, 144042, 144157
-recovered pasa_asmbl_39324.p1, internal, 137055, 137184
-recovered pasa_asmbl_39324.p1, internal, 137284, 137349
-recovered pasa_asmbl_39324.p1, internal, 137441, 137540
-recovered pasa_asmbl_39324.p1, internal, 138893, 139017
-recovered pasa_asmbl_39324.p1, internal, 139253, 139323
-recovered pasa_asmbl_39324.p1, internal, 142219, 142335
-recovered pasa_asmbl_39324.p1, internal, 142430, 142518
-recovered pasa_asmbl_39324.p1, internal, 142646, 142804
-recovered pasa_asmbl_39324.p1, internal, 143793, 143852
-recovered pasa_asmbl_39324.p1, internal, 144042, 144157
Valid prediction for snap_scaffold_3-snap.2754-T1
Valid prediction for Augustus_model.g5239.t1
Valid prediction for Augustus_model.g5257.t1
Valid prediction for snap_scaffold_3-snap.2759-T1
Valid prediction for Augustus_model.g5253.t1
Couldn't classify 77622, 77739
Sorry, prediction pasa_asmbl_39332.p1 fails validation.
(ACC)	 CC	77622-77739	GT	AGG
(GCG)	 AG	78557-78687	GT	AGG
(GAT)	 AG	78777-78905	GT	ATG
(CCT)	 AG	79304-79399	GT	AGG
(AGG)	 AG	79534-79671	GT	AGG
(GCT)	 AG	79768-79821	GT	TGG
(CTT)	 AG	81116-81265	GT	AGG
(TTT)	 AG	81444-81563	GT	TTG
(AGC)	 AG	81674-81868	GA	GAG
-recovered pasa_asmbl_39332.p1, terminal, 81674, 81868
-recovered pasa_asmbl_39332.p1, internal, 78557, 78687
-recovered pasa_asmbl_39332.p1, internal, 78777, 78905
-recovered pasa_asmbl_39332.p1, internal, 79304, 79399
-recovered pasa_asmbl_39332.p1, internal, 79534, 79671
-recovered pasa_asmbl_39332.p1, internal, 79768, 79821
-recovered pasa_asmbl_39332.p1, internal, 81116, 81265
-recovered pasa_asmbl_39332.p1, internal, 81444, 81563
Valid prediction for GeneMark_model.12879_t
Valid prediction for GeneMark_model.12890_t
Valid prediction for snap_scaffold_3-snap.2780-T1
Valid prediction for GlimmerHMM_glimmerT_7920-T1
Valid prediction for snap_scaffold_3-snap.2773-T1
Valid prediction for snap_scaffold_3-snap.2771-T1
Valid prediction for GlimmerHMM_glimmerT_7937-T1
Valid prediction for Augustus_model.g5264.t1
Valid prediction for HiQ_model.g5259.t1
Valid prediction for Augustus_model.g5245.t1
Valid prediction for GeneMark_model.12887_t
Valid prediction for snap_scaffold_3-snap.2757-T1
Valid prediction for snap_scaffold_3-snap.2749-T1
Valid prediction for snap_scaffold_3-snap.2772-T1
Valid prediction for GlimmerHMM_glimmerT_7938-T1
Valid prediction for Augustus_model.g5269.t1
Valid prediction for Augustus_model.g5271.t1
Valid prediction for GeneMark_model.12905_t
Valid prediction for GeneMark_model.12880_t
Valid prediction for HiQ_model.g5270.t1
Valid prediction for GlimmerHMM_glimmerT_7914-T1
Valid prediction for snap_scaffold_3-snap.2785-T1
Couldn't classify 273758, 273903
Couldn't classify 276718, 276784
Sorry, prediction pasa_asmbl_39302.p1 fails validation.
(TTG)	 CT	273758-273903	GT	GGG
(TAT)	 AG	274001-274245	GT	AAG
(TGC)	 AG	274460-274689	GC	AGG
(GAA)	 AG	274771-274871	GT	AAG
(TGA)	 AG	275397-275528	GT	AGG
(GAG)	 AG	275752-275865	GT	CAG
(GTT)	 AG	276083-276235	GC	AGG
(GTG)	 AG	276354-276551	GT	AGG
(ATT)	 AG	276718-276784	AA	TGA
-recovered pasa_asmbl_39302.p1, internal, 274001, 274245
-recovered pasa_asmbl_39302.p1, internal, 274460, 274689
-recovered pasa_asmbl_39302.p1, internal, 274771, 274871
-recovered pasa_asmbl_39302.p1, internal, 275397, 275528
-recovered pasa_asmbl_39302.p1, internal, 275752, 275865
-recovered pasa_asmbl_39302.p1, internal, 276083, 276235
-recovered pasa_asmbl_39302.p1, internal, 276354, 276551
Couldn't classify 130480, 130866
Sorry, prediction pasa_asmbl_39325.p1 fails validation.
(GTG)	 AC	130480-130866	GT	AAG
Valid prediction for GeneMark_model.12889_t
Valid prediction for GlimmerHMM_glimmerT_7911-T1
Valid prediction for CodingQuarry_transcript_46247-T1
Valid prediction for snap_scaffold_3-snap.2776-T1
Sorry, intron length (3) is less than minimum required (10)
Valid prediction for CodingQuarry_transcript_46254-T1
Valid prediction for GlimmerHMM_glimmerT_7931-T1
Valid prediction for CodingQuarry_transcript_46246-T1
Valid prediction for GeneMark_model.12914_t
Valid prediction for snap_scaffold_3-snap.2764-T1
Valid prediction for GeneMark_model.12884_t
Valid prediction for GlimmerHMM_glimmerT_7916-T1
Couldn't classify 28672, 28755
Sorry, prediction pasa_asmbl_39346.p1 fails validation.
(ATG)	 AA	15350-15430	GT	GTG
(GTG)	 AG	17682-17734	GT	TGG
(CTT)	 AG	17829-17883	GT	AGG
(AAA)	 AG	18747-18803	GT	TGG
(AGC)	 AG	18903-18963	GT	TGG
(ACT)	 AG	20214-20301	GT	ATG
(ACT)	 AG	22771-22860	GT	TGG
(CTG)	 AG	23201-23239	GT	ATG
(ATG)	 AG	24584-24662	GT	GGG
(ATG)	 AG	26118-26165	GT	AGG
(GTG)	 AG	28672-28755	TA	GGT
-recovered pasa_asmbl_39346.p1, initial, 15350, 15430
add_exon() Sorry, pasa_asmbl_39346.p1 24584-24662-initial-1 is invalid.
-recovered pasa_asmbl_39346.p1, initial, 24584, 24662
-recovered pasa_asmbl_39346.p1, initial, 26118, 26165
-recovered pasa_asmbl_39346.p1, internal, 17682, 17734
-recovered pasa_asmbl_39346.p1, internal, 17829, 17883
-recovered pasa_asmbl_39346.p1, internal, 18747, 18803
-recovered pasa_asmbl_39346.p1, internal, 18903, 18963
-recovered pasa_asmbl_39346.p1, internal, 20214, 20301
-recovered pasa_asmbl_39346.p1, internal, 22771, 22860
-recovered pasa_asmbl_39346.p1, internal, 23201, 23239
-recovered pasa_asmbl_39346.p1, internal, 24584, 24662
-recovered pasa_asmbl_39346.p1, internal, 26118, 26165
Valid prediction for GlimmerHMM_glimmerT_7940-T1
Valid prediction for snap_scaffold_3-snap.2781-T1
Valid prediction for snap_scaffold_3-snap.2786-T1
Valid prediction for Augustus_model.g5243.t1
Valid prediction for GeneMark_model.12907_t
Valid prediction for snap_scaffold_3-snap.2758-T1
Valid prediction for Augustus_model.g5260.t1
Valid prediction for GlimmerHMM_glimmerT_7905-T1
Valid prediction for snap_scaffold_3-snap.2775-T1
Valid prediction for pasa_asmbl_39328.p1
Valid prediction for Augustus_model.g5241.t1
Valid prediction for GlimmerHMM_glimmerT_7935-T1
Valid prediction for CodingQuarry_transcript_46250-T1
Valid prediction for GeneMark_model.12883_t
Valid prediction for Augustus_model.g5252.t1
Valid prediction for GlimmerHMM_glimmerT_7906-T1
Valid prediction for Augustus_model.g5266.t1
Valid prediction for Augustus_model.g5248.t1
Couldn't classify 72532, 72698
Sorry, prediction pasa_asmbl_39335.p1 fails validation.
(GAA)	 AG	72532-72698	GT	AGG
(GCC)	 AG	72802-72947	GT	CGG
(AGT)	 AG	73836-73913	GT	TGG
(AGT)	 AG	74049-74193	GT	GGG
(ACC)	 AG	74274-74832	CC	GAC
add_exon() Sorry, pasa_asmbl_39335.p1 72532-72698-terminal-2 is invalid.
-recovered pasa_asmbl_39335.p1, terminal, 72532, 72698
-recovered pasa_asmbl_39335.p1, terminal, 74274, 74832
-recovered pasa_asmbl_39335.p1, internal, 72532, 72698
-recovered pasa_asmbl_39335.p1, internal, 72802, 72947
-recovered pasa_asmbl_39335.p1, internal, 73836, 73913
-recovered pasa_asmbl_39335.p1, internal, 74049, 74193
Valid prediction for snap_scaffold_3-snap.2746-T1
Valid prediction for GeneMark_model.12900_t
Valid prediction for GeneMark_model.12903_t
Valid prediction for GeneMark_model.12888_t
Valid prediction for snap_scaffold_3-snap.2779-T1
Valid prediction for snap_scaffold_3-snap.2778-T1
Valid prediction for Augustus_model.g5268.t1
Valid prediction for GeneMark_model.12904_t
Valid prediction for GeneMark_model.12894_t
Valid prediction for pasa_asmbl_39352.p1
Couldn't classify 237621, 237898
Couldn't classify 241632, 241689
Sorry, prediction pasa_asmbl_39313.p1 fails validation.
(TCT)	 GA	237621-237898	GT	GGG
(TTG)	 AG	238043-238160	GT	GGG
(ATG)	 AG	238249-238328	GT	AGG
(AGT)	 AG	241020-241184	GT	ATG
(GGT)	 AG	241330-241383	GT	AGG
(GAA)	 AG	241632-241689	GA	AGG
-recovered pasa_asmbl_39313.p1, initial, 238249, 238328
-recovered pasa_asmbl_39313.p1, internal, 238043, 238160
-recovered pasa_asmbl_39313.p1, internal, 238249, 238328
-recovered pasa_asmbl_39313.p1, internal, 241020, 241184
-recovered pasa_asmbl_39313.p1, internal, 241330, 241383
Valid prediction for GlimmerHMM_glimmerT_7907-T1
Valid prediction for GlimmerHMM_glimmerT_7923-T1
Valid prediction for GlimmerHMM_glimmerT_7933-T1
Couldn't classify 222164, 222320
Sorry, prediction pasa_asmbl_39316.p1 fails validation.
(CAG)	 CT	222164-222320	GT	TGG
(TTC)	 AG	222996-223084	GT	AGG
(GGC)	 AG	223173-223289	GT	AGG
-recovered pasa_asmbl_39316.p1, terminal, 223173, 223289
-recovered pasa_asmbl_39316.p1, internal, 222996, 223084
-recovered pasa_asmbl_39316.p1, internal, 223173, 223289

-loading the search evidence (protein and EST search results, strand: -)
-scoring exons (strand: -)Error with prediction: snap lend_intergenic: 94571, rend_intergenic: 90023  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 264902, rend_intergenic: 245825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-building DP trellis

-building trellis in range 1 - 282490
-exon list size: 650


building trellis

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-found 42 predictions from path traversal
Error with prediction: snap lend_intergenic: 94571, rend_intergenic: 90023  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.
Error with prediction: snap lend_intergenic: 264902, rend_intergenic: 245825  at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218.

-reporting highest scoring path thru the trellis.
-found 39 predictions persist after filtering for low support