-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~funannotate/test/fun/predict_misc/EVM/scaffold_9/scaffold_9_9422002-9678906 -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_9-snap.1921-T1 Valid prediction for GlimmerHMM_glimmerT_22699-T1 Valid prediction for HiQ_model.g15108.t1 Valid prediction for snap_scaffold_9-snap.1908-T1 Valid prediction for snap_scaffold_9-snap.1881-T1 Valid prediction for snap_scaffold_9-snap.1885-T1 Valid prediction for GlimmerHMM_glimmerT_22705-T1 Valid prediction for snap_scaffold_9-snap.1918-T1 Valid prediction for GlimmerHMM_glimmerT_22697-T1 Couldn't classify 223944, 224082 Sorry, prediction pasa_asmbl_54213.p1 fails validation. (ATG) GA 222879-222931 GT AGG (GCA) AG 223015-223072 GT AGG (GTG) AG 223277-223396 GT TGG (AAC) AG 223496-223549 GT CTG (ATG) AG 223755-223813 GT CAG (GTT) AG 223944-224082 AC CCA -recovered pasa_asmbl_54213.p1, initial, 222879, 222931 -recovered pasa_asmbl_54213.p1, initial, 223755, 223813 -recovered pasa_asmbl_54213.p1, internal, 223015, 223072 -recovered pasa_asmbl_54213.p1, internal, 223277, 223396 -recovered pasa_asmbl_54213.p1, internal, 223496, 223549 -recovered pasa_asmbl_54213.p1, internal, 223755, 223813 Valid prediction for Augustus_model.g15101.t1 Valid prediction for CodingQuarry_transcript_62278-T1 Valid prediction for Augustus_model.g15089.t1 Couldn't classify 45191, 45215 Sorry, prediction pasa_asmbl_54200.p1 fails validation. (CAT) AC 45191-45215 GT AGG (CCC) AG 45410-45601 GT ACG (CCA) AG 45840-45892 GT AGG (CTG) AG 45987-46091 CT GAC -recovered pasa_asmbl_54200.p1, terminal, 45987, 46091 -recovered pasa_asmbl_54200.p1, internal, 45410, 45601 -recovered pasa_asmbl_54200.p1, internal, 45840, 45892 Valid prediction for HiQ_model.g15093.t1 Valid prediction for snap_scaffold_9-snap.1886-T1 Valid prediction for CodingQuarry_transcript_62263-T1 Valid prediction for GlimmerHMM_glimmerT_22691-T1 Valid prediction for snap_scaffold_9-snap.1890-T1 Valid prediction for CodingQuarry_transcript_62276-T1 Valid prediction for snap_scaffold_9-snap.1927-T1 Valid prediction for Augustus_model.g15086.t1 Valid prediction for snap_scaffold_9-snap.1925-T1 Valid prediction for snap_scaffold_9-snap.1893-T1 Valid prediction for CodingQuarry_transcript_62277-T1 Valid prediction for snap_scaffold_9-snap.1924-T1 Valid prediction for GlimmerHMM_glimmerT_22704-T1 Valid prediction for pasa_asmbl_54218.p1 Valid prediction for Augustus_model.g15106.t1 Valid prediction for snap_scaffold_9-snap.1919-T1 Valid prediction for GlimmerHMM_glimmerT_22679-T1 Couldn't classify 202417, 202573 Sorry, prediction pasa_asmbl_54206.p1 fails validation. (CCA) AC 202417-202573 GT GGG (GTG) AG 203263-203410 GT TTG (GAA) AG 203559-203635 GT TGG (TAA) AG 203774-203829 GT CGG (ACT) AG 203953-204050 GT TTG (GGT) AG 204212-204334 GT AGG (GTC) AG 204417-204683 GT GTG (TGC) AG 204990-205070 GT AGG (AGC) AG 205168-205227 GT AAG (GGA) AG 205312-205368 GT CGG (GCC) AG 205519-205541 GT TGG (AGC) AG 205652-205707 GT AGG (ACT) AG 205799-205999 GT AGG (GTG) AG 206135-206211 GT CTG (TCC) AG 206314-206358 GT CGG (GTT) AG 206480-206612 GT TTG (GTG) AG 206792-206880 GT CGG (GAA) AG 206966-207057 GT AGG (GTC) AG 207198-207330 GT TGG (CCC) AG 207441-207528 GT AAG (GGT) AG 207625-207783 GA GAG add_exon() Sorry, pasa_asmbl_54206.p1 204990-205070-terminal-1 is invalid. -recovered pasa_asmbl_54206.p1, terminal, 204990, 205070 -recovered pasa_asmbl_54206.p1, terminal, 207625, 207783 -recovered pasa_asmbl_54206.p1, internal, 203263, 203410 -recovered pasa_asmbl_54206.p1, internal, 203559, 203635 -recovered pasa_asmbl_54206.p1, internal, 203774, 203829 -recovered pasa_asmbl_54206.p1, internal, 203953, 204050 -recovered pasa_asmbl_54206.p1, internal, 204212, 204334 -recovered pasa_asmbl_54206.p1, internal, 204417, 204683 -recovered pasa_asmbl_54206.p1, internal, 204990, 205070 -recovered pasa_asmbl_54206.p1, internal, 205168, 205227 -recovered pasa_asmbl_54206.p1, internal, 205312, 205368 -recovered pasa_asmbl_54206.p1, internal, 205519, 205541 -recovered pasa_asmbl_54206.p1, internal, 205652, 205707 -recovered pasa_asmbl_54206.p1, internal, 205799, 205999 -recovered pasa_asmbl_54206.p1, internal, 206135, 206211 -recovered pasa_asmbl_54206.p1, internal, 206314, 206358 -recovered pasa_asmbl_54206.p1, internal, 206480, 206612 -recovered pasa_asmbl_54206.p1, internal, 206792, 206880 -recovered pasa_asmbl_54206.p1, internal, 206966, 207057 -recovered pasa_asmbl_54206.p1, internal, 207198, 207330 -recovered pasa_asmbl_54206.p1, internal, 207441, 207528 Couldn't classify 211675, 212227 Couldn't classify 212457, 212470 Sorry, prediction pasa_asmbl_54207.p1 fails validation. (GAT) CA 211675-212227 GT AGG (TGT) AG 212322-212366 GT AGG (AAG) AG 212457-212470 GA GGG -recovered pasa_asmbl_54207.p1, internal, 212322, 212366 Valid prediction for snap_scaffold_9-snap.1900-T1 Valid prediction for GlimmerHMM_glimmerT_22686-T1 Valid prediction for GlimmerHMM_glimmerT_22676-T1 Valid prediction for snap_scaffold_9-snap.1904-T1 Valid prediction for GlimmerHMM_glimmerT_22702-T1 Valid prediction for HiQ_model.g15110.t1 Valid prediction for GlimmerHMM_glimmerT_22685-T1 Valid prediction for HiQ_model.g15103.t1 Valid prediction for CodingQuarry_transcript_62275-T1 Valid prediction for snap_scaffold_9-snap.1913-T1 Couldn't classify 225958, 226055 Sorry, prediction pasa_asmbl_54216.p1 fails validation. (GGG) CA 225958-226055 GT AGG (GAG) AG 226152-226221 GT AGG (CTC) AG 226321-226415 GT CGG (TCC) AG 226573-226649 GT ACG (AGA) AG 226733-226887 GT GGG (GGG) AG 226973-227082 GT GGG (GCA) AG 227195-227305 GT TTG (ATT) AG 227672-227733 GT GGG (GTG) AG 227983-228137 CT AGC -recovered pasa_asmbl_54216.p1, terminal, 227983, 228137 -recovered pasa_asmbl_54216.p1, internal, 226152, 226221 -recovered pasa_asmbl_54216.p1, internal, 226321, 226415 -recovered pasa_asmbl_54216.p1, internal, 226573, 226649 -recovered pasa_asmbl_54216.p1, internal, 226733, 226887 -recovered pasa_asmbl_54216.p1, internal, 226973, 227082 -recovered pasa_asmbl_54216.p1, internal, 227195, 227305 -recovered pasa_asmbl_54216.p1, internal, 227672, 227733 Valid prediction for GlimmerHMM_glimmerT_22706-T1 Valid prediction for snap_scaffold_9-snap.1884-T1 Valid prediction for GlimmerHMM_glimmerT_22681-T1 Valid prediction for snap_scaffold_9-snap.1923-T1 Valid prediction for Augustus_model.g15104.t1 Couldn't classify 225134, 225222 Couldn't classify 225665, 225770 Sorry, prediction pasa_asmbl_54215.p1 fails validation. (CCT) AA 225134-225222 GT AGG (ATG) AG 225303-225354 GT AGG (GAG) AG 225449-225549 GT AAG (ATG) AG 225665-225770 CT AGC add_exon() Sorry, pasa_asmbl_54215.p1 225303-225354-initial-1 is invalid. -recovered pasa_asmbl_54215.p1, initial, 225303, 225354 -recovered pasa_asmbl_54215.p1, internal, 225303, 225354 -recovered pasa_asmbl_54215.p1, internal, 225449, 225549 Valid prediction for pasa_asmbl_54203.p1 Valid prediction for Augustus_model.g15109.t1 Valid prediction for snap_scaffold_9-snap.1897-T1 Valid prediction for GlimmerHMM_glimmerT_22707-T1 Valid prediction for CodingQuarry_transcript_62274-T1 Valid prediction for snap_scaffold_9-snap.1915-T1 Valid prediction for snap_scaffold_9-snap.1888-T1 Valid prediction for pasa_asmbl_54211.p1 Valid prediction for snap_scaffold_9-snap.1926-T1 Valid prediction for snap_scaffold_9-snap.1909-T1 Valid prediction for GlimmerHMM_glimmerT_22683-T1 Couldn't classify 185065, 185115 Couldn't classify 185948, 186031 Sorry, prediction pasa_asmbl_54205.p1 fails validation. (GAG) AA 185065-185115 GT CAG (AGT) AG 185318-185449 GT GGG (TAC) AG 185551-185652 GT AGG (ATC) AG 185948-186031 AA GCA -recovered pasa_asmbl_54205.p1, internal, 185318, 185449 -recovered pasa_asmbl_54205.p1, internal, 185551, 185652 Valid prediction for GlimmerHMM_glimmerT_22700-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_22703-T1 Valid prediction for Augustus_model.g15097.t1 Valid prediction for GlimmerHMM_glimmerT_22709-T1 Valid prediction for pasa_asmbl_55189.p1 Valid prediction for GlimmerHMM_glimmerT_22689-T1 Valid prediction for CodingQuarry_transcript_62271-T1 Valid prediction for Augustus_model.g15098.t1 Valid prediction for snap_scaffold_9-snap.1929-T1 Valid prediction for GlimmerHMM_glimmerT_22696-T1 Valid prediction for CodingQuarry_transcript_62267-T1 Valid prediction for GlimmerHMM_glimmerT_22692-T1 Valid prediction for CodingQuarry_transcript_62258-T1 Valid prediction for snap_scaffold_9-snap.1917-T1 Couldn't classify 95806, 95849 Couldn't classify 97904, 98040 Sorry, prediction pasa_asmbl_55202.p1 fails validation. (GCA) TG 95806-95849 GT CGG (GAG) AG 95959-96075 GT AGG (GTA) AG 96725-96960 GT TGG (GTG) AG 97045-97158 GT AGG (GTG) AG 97408-97520 GT GGG (GCC) AG 97622-97730 GT GGG (GTC) AG 97904-98040 AT CCA -recovered pasa_asmbl_55202.p1, internal, 95959, 96075 -recovered pasa_asmbl_55202.p1, internal, 96725, 96960 -recovered pasa_asmbl_55202.p1, internal, 97045, 97158 -recovered pasa_asmbl_55202.p1, internal, 97408, 97520 -recovered pasa_asmbl_55202.p1, internal, 97622, 97730 Valid prediction for snap_scaffold_9-snap.1906-T1 Valid prediction for CodingQuarry_transcript_62260-T1 Valid prediction for HiQ_model.g15090.t1 Valid prediction for Augustus_model.g15094.t1 Couldn't classify 15585, 15806 Sorry, prediction pasa_asmbl_55231.p1 fails validation. (AAG) GA 15585-15806 GT AGG (GAC) AG 16024-16113 GC AGG -recovered pasa_asmbl_55231.p1, terminal, 16024, 16113 -recovered pasa_asmbl_55231.p1, internal, 16024, 16113 Couldn't classify 107462, 107553 Couldn't classify 111267, 111285 Sorry, prediction pasa_asmbl_55200.p1 fails validation. (GGG) AT 107462-107553 GT CAG (TGC) AG 109236-109372 GT TGG (CCC) AG 109467-109611 GT CGG (GTT) AG 110009-110102 GT GGG (TCG) AG 110291-110360 GT GGG (AGA) AG 110598-110737 GT AGG (GTA) AG 110849-110925 GT GGG (GCC) AG 111267-111285 GC TGG -recovered pasa_asmbl_55200.p1, internal, 109236, 109372 -recovered pasa_asmbl_55200.p1, internal, 109467, 109611 -recovered pasa_asmbl_55200.p1, internal, 110009, 110102 -recovered pasa_asmbl_55200.p1, internal, 110291, 110360 -recovered pasa_asmbl_55200.p1, internal, 110598, 110737 -recovered pasa_asmbl_55200.p1, internal, 110849, 110925 -recovered pasa_asmbl_55200.p1, internal, 111267, 111285 Couldn't classify 98335, 98388 Sorry, prediction pasa_asmbl_55201.p2 fails validation. (CGG) TA 98335-98388 GT ACG (ACA) AG 98677-98940 CA AAC -recovered pasa_asmbl_55201.p2, terminal, 98677, 98940 Couldn't classify 20103, 20420 Sorry, prediction pasa_asmbl_55227.p1 fails validation. (CGT) GC 20103-20420 AA GAA Couldn't classify 118820, 118873 Sorry, prediction pasa_asmbl_55196.p1 fails validation. (CGA) TT 118820-118873 GT ATG (ACC) AG 118977-119112 GT AGG (GCC) AG 119245-119389 GT AGG (TGG) AG 120651-120770 GT AGG (GTA) AG 120908-121043 GT AGG (GTT) AG 121223-121320 GT AAG (GAT) AG 121451-121562 GT AGG (GTG) AG 121680-121814 CG AAC -recovered pasa_asmbl_55196.p1, terminal, 121680, 121814 -recovered pasa_asmbl_55196.p1, internal, 118977, 119112 -recovered pasa_asmbl_55196.p1, internal, 119245, 119389 -recovered pasa_asmbl_55196.p1, internal, 120651, 120770 -recovered pasa_asmbl_55196.p1, internal, 120908, 121043 -recovered pasa_asmbl_55196.p1, internal, 121223, 121320 -recovered pasa_asmbl_55196.p1, internal, 121451, 121562 Couldn't classify 112217, 112343 Couldn't classify 112799, 112842 Sorry, prediction pasa_asmbl_55198.p1 fails validation. (TTC) GC 112217-112343 GT AAG (ACA) AG 112499-112708 GT AGG (GGA) AG 112799-112842 GC AGG -recovered pasa_asmbl_55198.p1, internal, 112499, 112708 -recovered pasa_asmbl_55198.p1, internal, 112799, 112842 Valid prediction for CodingQuarry_transcript_62266-T1 Valid prediction for HiQ_model.g15102.t1 Valid prediction for snap_scaffold_9-snap.1910-T1 Valid prediction for CodingQuarry_transcript_62261-T1 Valid prediction for Augustus_model.g15088.t1 Valid prediction for snap_scaffold_9-snap.1889-T1 Valid prediction for Augustus_model.g15095.t1 Valid prediction for Augustus_model.g15099.t1 Valid prediction for snap_scaffold_9-snap.1916-T1 Valid prediction for snap_scaffold_9-snap.1901-T1 Couldn't classify 140286, 140366 Sorry, prediction CodingQuarry_transcript_62262-T1 fails validation. (ATG) AT 136609-136625 GT TTG (CCG) AG 137588-137618 GT AGG (TAC) AG 138803-138948 GT AGG (TAA) AG 139184-139277 GC GTG (CTG) CT 140286-140366 GT ATG (GTG) AG 140589-140672 GT AGG (GAC) AG 140790-140867 GT AGG (AAA) AG 141009-141119 GT GGG (CAA) AG 141595-141717 GT AGG (ATG) AG 141853-141900 AA GAA -recovered CodingQuarry_transcript_62262-T1, initial, 136609, 136625 -recovered CodingQuarry_transcript_62262-T1, terminal, 141853, 141900 -recovered CodingQuarry_transcript_62262-T1, internal, 137588, 137618 -recovered CodingQuarry_transcript_62262-T1, internal, 138803, 138948 -recovered CodingQuarry_transcript_62262-T1, internal, 139184, 139277 -recovered CodingQuarry_transcript_62262-T1, internal, 140589, 140672 -recovered CodingQuarry_transcript_62262-T1, internal, 140790, 140867 -recovered CodingQuarry_transcript_62262-T1, internal, 141009, 141119 -recovered CodingQuarry_transcript_62262-T1, internal, 141595, 141717 Valid prediction for snap_scaffold_9-snap.1896-T1 Valid prediction for snap_scaffold_9-snap.1892-T1 Valid prediction for GlimmerHMM_glimmerT_22678-T1 Couldn't classify 202351, 202533 Sorry, prediction pasa_asmbl_55186.p1 fails validation. (CTT) TC 202351-202533 GT GGG (GAG) AG 202898-203001 GT AGG (GTC) AG 203261-203339 GT AGG (CTG) AG 203425-203478 GT GGG (GGT) AG 203964-204047 GT AGG (ACG) AG 204180-204280 GT GGG (GTT) AG 204579-204708 GT AGG (CTC) AG 205007-205162 GT AGG (GTG) AG 205430-205501 GT AGG (GGC) AG 205665-205751 GT AGG (GGG) AG 205866-206090 CC GAC -recovered pasa_asmbl_55186.p1, terminal, 205866, 206090 -recovered pasa_asmbl_55186.p1, internal, 202898, 203001 -recovered pasa_asmbl_55186.p1, internal, 203261, 203339 -recovered pasa_asmbl_55186.p1, internal, 203425, 203478 -recovered pasa_asmbl_55186.p1, internal, 203964, 204047 -recovered pasa_asmbl_55186.p1, internal, 204180, 204280 -recovered pasa_asmbl_55186.p1, internal, 204579, 204708 -recovered pasa_asmbl_55186.p1, internal, 205007, 205162 -recovered pasa_asmbl_55186.p1, internal, 205430, 205501 -recovered pasa_asmbl_55186.p1, internal, 205665, 205751 Valid prediction for Augustus_model.g15083.t1 Valid prediction for CodingQuarry_transcript_62265-T1 Valid prediction for CodingQuarry_transcript_62270-T1 Valid prediction for GlimmerHMM_glimmerT_22682-T1 Valid prediction for pasa_asmbl_55179.p1 Valid prediction for CodingQuarry_transcript_62279-T1 Valid prediction for Augustus_model.g15111.t1 Valid prediction for Augustus_model.g15085.t1 Couldn't classify 64376, 64483 Sorry, prediction pasa_asmbl_55215.p1 fails validation. (TCC) CC 64376-64483 GT AGG (CTT) AG 64760-64793 GT AGG (CCA) AG 65002-65115 GT AGG (GAG) AG 65655-65761 GT AGG (AAC) AG 65875-66012 GT TGG (CCC) AG 66217-66294 GT AGG (CCT) AG 68267-68407 TT AAT -recovered pasa_asmbl_55215.p1, terminal, 68267, 68407 -recovered pasa_asmbl_55215.p1, internal, 64760, 64793 -recovered pasa_asmbl_55215.p1, internal, 65002, 65115 -recovered pasa_asmbl_55215.p1, internal, 65655, 65761 -recovered pasa_asmbl_55215.p1, internal, 65875, 66012 -recovered pasa_asmbl_55215.p1, internal, 66217, 66294 Valid prediction for snap_scaffold_9-snap.1887-T1 Valid prediction for GlimmerHMM_glimmerT_22698-T1 Valid prediction for GlimmerHMM_glimmerT_22684-T1 Valid prediction for snap_scaffold_9-snap.1883-T1 Valid prediction for Augustus_model.g15082.t1 Valid prediction for snap_scaffold_9-snap.1899-T1 Valid prediction for Augustus_model.g15092.t1 Valid prediction for CodingQuarry_transcript_62256-T1 Valid prediction for HiQ_model.g15107.t1 Valid prediction for snap_scaffold_9-snap.1903-T1 Couldn't classify 84120, 84254 Couldn't classify 84594, 84742 Sorry, prediction pasa_asmbl_55207.p1 fails validation. (GAA) TC 84120-84254 GT TGG (ATG) AG 84361-84508 GT CAG (GGA) AG 84594-84742 GT AGG -recovered pasa_asmbl_55207.p1, initial, 84361, 84508 -recovered pasa_asmbl_55207.p1, internal, 84361, 84508 -recovered pasa_asmbl_55207.p1, internal, 84594, 84742 Valid prediction for CodingQuarry_transcript_62269-T1 Valid prediction for HiQ_model.g15112.t1 Valid prediction for GlimmerHMM_glimmerT_22690-T1 Valid prediction for pasa_asmbl_55193.p1 Couldn't classify 56139, 56409 Couldn't classify 62085, 62133 Sorry, prediction pasa_asmbl_55220.p1 fails validation. (GAG) GG 56139-56409 GT CGG (ATC) AG 59188-59332 GT AGG (TCG) AG 59618-59744 GT TGG (GAC) AG 59892-59997 GT AGG (AGC) AG 60079-60215 GT AGG (ATT) AG 60330-60439 GT TGG (TGT) AG 60937-61030 GT AGG (CCT) AG 61212-61332 GT ACG (TGG) AG 61541-61689 GT AGG (GGC) AG 61774-61850 GT AGG (GAG) AG 62085-62133 GT AGG -recovered pasa_asmbl_55220.p1, internal, 59188, 59332 -recovered pasa_asmbl_55220.p1, internal, 59618, 59744 -recovered pasa_asmbl_55220.p1, internal, 59892, 59997 -recovered pasa_asmbl_55220.p1, internal, 60079, 60215 -recovered pasa_asmbl_55220.p1, internal, 60330, 60439 -recovered pasa_asmbl_55220.p1, internal, 60937, 61030 -recovered pasa_asmbl_55220.p1, internal, 61212, 61332 -recovered pasa_asmbl_55220.p1, internal, 61541, 61689 -recovered pasa_asmbl_55220.p1, internal, 61774, 61850 -recovered pasa_asmbl_55220.p1, internal, 62085, 62133 Valid prediction for pasa_asmbl_55226.p1 Couldn't classify 89967, 90008 Sorry, prediction pasa_asmbl_55203.p1 fails validation. (CCT) TC 89967-90008 GT AGG (CTC) AG 90265-90354 GT AGG (TCC) AG 90461-90650 GT AGG (GGA) AG 90766-90925 GT AGG (GTC) AG 91027-91105 GT GTG (GTA) AG 91231-91344 GT AGG (GTC) AG 91464-91628 GT AGG (CTG) AG 91781-91882 AC GAA -recovered pasa_asmbl_55203.p1, terminal, 91781, 91882 -recovered pasa_asmbl_55203.p1, internal, 90265, 90354 -recovered pasa_asmbl_55203.p1, internal, 90461, 90650 -recovered pasa_asmbl_55203.p1, internal, 90766, 90925 -recovered pasa_asmbl_55203.p1, internal, 91027, 91105 -recovered pasa_asmbl_55203.p1, internal, 91231, 91344 -recovered pasa_asmbl_55203.p1, internal, 91464, 91628 Valid prediction for GlimmerHMM_glimmerT_22687-T1 Valid prediction for pasa_asmbl_55173.p1 Valid prediction for GlimmerHMM_glimmerT_22701-T1 Valid prediction for GlimmerHMM_glimmerT_22694-T1 Valid prediction for GlimmerHMM_glimmerT_22680-T1 Valid prediction for HiQ_model.g15100.t1 Valid prediction for snap_scaffold_9-snap.1914-T1 Valid prediction for pasa_asmbl_55209.p1 Valid prediction for pasa_asmbl_55229.p1 Valid prediction for GlimmerHMM_glimmerT_22695-T1 Valid prediction for GlimmerHMM_glimmerT_22675-T1 Couldn't classify 216133, 216225 Sorry, prediction pasa_asmbl_55176.p1 fails validation. (ATG) AC 213311-213320 GT TGG (GTT) AG 214665-214862 GT AGG (GGA) AG 215111-215220 GT AGG (GTG) AG 215689-215830 GT TGG (AGA) AG 215958-216046 GT AGG (CTG) AG 216133-216225 GT AGG -recovered pasa_asmbl_55176.p1, initial, 213311, 213320 -recovered pasa_asmbl_55176.p1, internal, 214665, 214862 -recovered pasa_asmbl_55176.p1, internal, 215111, 215220 -recovered pasa_asmbl_55176.p1, internal, 215689, 215830 -recovered pasa_asmbl_55176.p1, internal, 215958, 216046 -recovered pasa_asmbl_55176.p1, internal, 216133, 216225 Valid prediction for snap_scaffold_9-snap.1895-T1 Valid prediction for Augustus_model.g15084.t1 Valid prediction for snap_scaffold_9-snap.1894-T1 Valid prediction for snap_scaffold_9-snap.1920-T1 Valid prediction for Augustus_model.g15096.t1 Valid prediction for snap_scaffold_9-snap.1928-T1 Valid prediction for snap_scaffold_9-snap.1912-T1 Valid prediction for Augustus_model.g15091.t1 Valid prediction for CodingQuarry_transcript_62273-T1 Couldn't classify 19452, 19520 Couldn't classify 19855, 20033 Sorry, prediction pasa_asmbl_55807.p1 fails validation. (TAC) TG 19452-19520 GT AGG (GTG) AG 19651-19768 GT AGG (GAG) AG 19855-20033 GC TGG add_exon() Sorry, pasa_asmbl_55807.p1 19651-19768-terminal-3 is invalid. -recovered pasa_asmbl_55807.p1, terminal, 19651, 19768 -recovered pasa_asmbl_55807.p1, internal, 19651, 19768 -recovered pasa_asmbl_55807.p1, internal, 19855, 20033 Valid prediction for snap_scaffold_9-snap.1907-T1 Valid prediction for pasa_asmbl_55188.p1 Valid prediction for GlimmerHMM_glimmerT_22674-T1 Valid prediction for Augustus_model.g15087.t1 Couldn't classify 118593, 118678 Couldn't classify 118974, 119112 Sorry, prediction CodingQuarry_transcript_62264-T1 fails validation. (ATG) TC 116460-116533 GT GGG (ACG) AG 117722-117987 GT CGG (AGA) AG 118593-118678 GG TGG (CAG) TA 118974-119112 GT AGG (GCC) AG 119245-119389 GT AGG (TGG) AG 120651-120770 GT AGG (GTA) AG 120908-121043 GT AGG (GTT) AG 121223-121320 GT AAG (GAT) AG 121451-121562 GT AGG (GTG) AG 121680-121814 CG AAC -recovered CodingQuarry_transcript_62264-T1, initial, 116460, 116533 -recovered CodingQuarry_transcript_62264-T1, terminal, 121680, 121814 -recovered CodingQuarry_transcript_62264-T1, internal, 117722, 117987 -recovered CodingQuarry_transcript_62264-T1, internal, 119245, 119389 -recovered CodingQuarry_transcript_62264-T1, internal, 120651, 120770 -recovered CodingQuarry_transcript_62264-T1, internal, 120908, 121043 -recovered CodingQuarry_transcript_62264-T1, internal, 121223, 121320 -recovered CodingQuarry_transcript_62264-T1, internal, 121451, 121562 Valid prediction for snap_scaffold_9-snap.1898-T1 Valid prediction for CodingQuarry_transcript_62257-T1 Valid prediction for GlimmerHMM_glimmerT_22688-T1 Valid prediction for CodingQuarry_transcript_62259-T1 Valid prediction for pasa_asmbl_55211.p2 Valid prediction for Augustus_model.g15105.t1 Couldn't classify 85768, 86115 Couldn't classify 86208, 86228 Sorry, prediction pasa_asmbl_55206.p1 fails validation. (AGC) AG 85768-86115 GT AGG (GGG) AG 86208-86228 GG GTG -recovered pasa_asmbl_55206.p1, internal, 85768, 86115 Valid prediction for GlimmerHMM_glimmerT_22708-T1 Valid prediction for CodingQuarry_transcript_62268-T1 Valid prediction for snap_scaffold_9-snap.1905-T1 Couldn't classify 86532, 86653 Couldn't classify 89133, 89213 Sorry, prediction pasa_asmbl_55205.p1 fails validation. (ACC) TG 86532-86653 GT AGG (ATA) AG 86905-86977 GT AGG (ATT) AG 87221-87424 GT AGG (TAC) AG 87573-87716 GT AGG (GTA) AG 87821-87914 GT TGG (GTC) AG 88052-88236 GT GGG (AAC) AG 88865-89011 GT AGG (GGC) AG 89133-89213 AC CCA -recovered pasa_asmbl_55205.p1, internal, 86905, 86977 -recovered pasa_asmbl_55205.p1, internal, 87221, 87424 -recovered pasa_asmbl_55205.p1, internal, 87573, 87716 -recovered pasa_asmbl_55205.p1, internal, 87821, 87914 -recovered pasa_asmbl_55205.p1, internal, 88052, 88236 -recovered pasa_asmbl_55205.p1, internal, 88865, 89011 Valid prediction for snap_scaffold_9-snap.1911-T1 Valid prediction for snap_scaffold_9-snap.1922-T1 Valid prediction for GlimmerHMM_glimmerT_22693-T1 Valid prediction for GlimmerHMM_glimmerT_22677-T1 Valid prediction for snap_scaffold_9-snap.1891-T1 Valid prediction for snap_scaffold_9-snap.1902-T1 Valid prediction for snap_scaffold_9-snap.1882-T1 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 14533, rend_intergenic: 10976 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 38812, rend_intergenic: 24935 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 42359, rend_intergenic: 39184 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 63242, rend_intergenic: 58614 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 66590, rend_intergenic: 64097 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 71536, rend_intergenic: 69273 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 81210, rend_intergenic: 73058 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 87164, rend_intergenic: 84408 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 104172, rend_intergenic: 103341 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 153910, rend_intergenic: 145147 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 176827, rend_intergenic: 168869 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 256905 -exon list size: 652 building trellis 0.2 0.3 0.5 0.6 0.8 0.9 1.1 1.2 1.4 1.5 1.7 1.8 2.0 2.1 2.3 2.4 2.6 2.8 2.9 3.1 3.2 3.4 3.5 3.7 3.8 4.0 4.1 4.3 4.4 4.6 4.7 4.9 5.0 5.2 5.4 5.5 5.7 5.8 6.0 6.1 6.3 6.4 6.6 6.7 6.9 7.0 7.2 7.3 7.5 7.6 7.8 8.0 8.1 8.3 8.4 8.6 8.7 8.9 9.0 9.2 9.3 9.5 9.6 9.8 9.9 10.1 10.2 10.4 10.6 10.7 10.9 11.0 11.2 11.3 11.5 11.6 11.8 11.9 12.1 12.2 12.4 12.5 12.7 12.8 13.0 13.1 13.3 13.5 13.6 13.8 13.9 14.1 14.2 14.4 14.5 14.7 14.8 15.0 15.1 15.3 15.4 15.6 15.7 15.9 16.1 16.2 16.4 16.5 16.7 16.8 17.0 17.1 17.3 17.4 17.6 17.7 17.9 18.0 18.2 18.3 18.5 18.7 18.8 19.0 19.1 19.3 19.4 19.6 19.7 19.9 20.0 20.2 20.3 20.5 20.6 20.8 20.9 21.1 21.3 21.4 21.6 21.7 21.9 22.0 22.2 22.3 22.5 22.6 22.8 22.9 23.1 23.2 23.4 23.5 23.7 23.9 24.0 24.2 24.3 24.5 24.6 24.8 24.9 25.1 25.2 25.4 25.5 25.7 25.8 26.0 26.1 26.3 26.5 26.6 26.8 26.9 27.1 27.2 27.4 27.5 27.7 27.8 28.0 28.1 28.3 28.4 28.6 28.7 28.9 29.1 29.2 29.4 29.5 29.7 29.8 30.0 30.1 30.3 30.4 30.6 30.7 30.9 31.0 31.2 31.3 31.5 31.7 31.8 32.0 32.1 32.3 32.4 32.6 32.7 32.9 33.0 33.2 33.3 33.5 33.6 33.8 33.9 34.1 34.3 34.4 34.6 34.7 34.9 35.0 35.2 35.3 35.5 35.6 35.8 35.9 36.1 36.2 36.4 36.5 36.7 36.9 37.0 37.2 37.3 37.5 37.6 37.8 37.9 38.1 38.2 38.4 38.5 38.7 38.8 39.0 39.1 39.3 39.4 39.6 39.8 39.9 40.1 40.2 40.4 40.5 40.7 40.8 41.0 41.1 41.3 41.4 41.6 41.7 41.9 42.0 42.2 42.4 42.5 42.7 42.8 43.0 43.1 43.3 43.4 43.6 43.7 43.9 44.0 44.2 44.3 44.5 44.6 44.8 45.0 45.1 45.3 45.4 45.6 45.7 45.9 46.0 46.2 46.3 46.5 46.6 46.8 46.9 47.1 47.2 47.4 47.6 47.7 47.9 48.0 48.2 48.3 48.5 48.6 48.8 48.9 49.1 49.2 49.4 49.5 49.7 49.8 50.0 50.2 50.3 50.5 50.6 50.8 50.9 51.1 51.2 51.4 51.5 51.7 51.8 52.0 52.1 52.3 52.4 52.6 52.8 52.9 53.1 53.2 53.4 53.5 53.7 53.8 54.0 54.1 54.3 54.4 54.6 54.7 54.9 55.0 55.2 55.4 55.5 55.7 55.8 56.0 56.1 56.3 56.4 56.6 56.7 56.9 57.0 57.2 57.3 57.5 57.6 57.8 58.0 58.1 58.3 58.4 58.6 58.7 58.9 59.0 59.2 59.3 59.5 59.6 59.8 59.9 60.1 60.2 60.4 60.6 60.7 60.9 61.0 61.2 61.3 61.5 61.6 61.8 61.9 62.1 62.2 62.4 62.5 62.7 62.8 63.0 63.1 63.3 63.5 63.6 63.8 63.9 64.1 64.2 64.4 64.5 64.7 64.8 65.0 65.1 65.3 65.4 65.6 65.7 65.9 66.1 66.2 66.4 66.5 66.7 66.8 67.0 67.1 67.3 67.4 67.6 67.7 67.9 68.0 68.2 68.3 68.5 68.7 68.8 69.0 69.1 69.3 69.4 69.6 69.7 69.9 70.0 70.2 70.3 70.5 70.6 70.8 70.9 71.1 71.3 71.4 71.6 71.7 71.9 72.0 72.2 72.3 72.5 72.6 72.8 72.9 73.1 73.2 73.4 73.5 73.7 73.9 74.0 74.2 74.3 74.5 74.6 74.8 74.9 75.1 75.2 75.4 75.5 75.7 75.8 76.0 76.1 76.3 76.5 76.6 76.8 76.9 77.1 77.2 77.4 77.5 77.7 77.8 78.0 78.1 78.3 78.4 78.6 78.7 78.9 79.1 79.2 79.4 79.5 79.7 79.8 80.0 80.1 80.3 80.4 80.6 80.7 80.9 81.0 81.2 81.3 81.5 81.7 81.8 82.0 82.1 82.3 82.4 82.6 82.7 82.9 83.0 83.2 83.3 83.5 83.6 83.8 83.9 84.1 84.3 84.4 84.6 84.7 84.9 85.0 85.2 85.3 85.5 85.6 85.8 85.9 86.1 86.2 86.4 86.5 86.7 86.9 87.0 87.2 87.3 87.5 87.6 87.8 87.9 88.1 88.2 88.4 88.5 88.7 88.8 89.0 89.1 89.3 89.4 89.6 89.8 89.9 90.1 90.2 90.4 90.5 90.7 90.8 91.0 91.1 91.3 91.4 91.6 91.7 91.9 92.0 92.2 92.4 92.5 92.7 92.8 93.0 93.1 93.3 93.4 93.6 93.7 93.9 94.0 94.2 94.3 94.5 94.6 94.8 95.0 95.1 95.3 95.4 95.6 95.7 95.9 96.0 96.2 96.3 96.5 96.6 96.8 96.9 97.1 97.2 97.4 97.6 97.7 97.9 98.0 98.2 98.3 98.5 98.6 98.8 98.9 99.1 99.2 99.4 99.5 99.7 99.8 -found 37 predictions from path traversal Error with prediction: snap lend_intergenic: 14533, rend_intergenic: 10976 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 38812, rend_intergenic: 24935 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 42359, rend_intergenic: 39184 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 63242, rend_intergenic: 58614 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 66590, rend_intergenic: 64097 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 71536, rend_intergenic: 69273 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 81210, rend_intergenic: 73058 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 87164, rend_intergenic: 84408 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 104172, rend_intergenic: 103341 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 153910, rend_intergenic: 145147 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 176827, rend_intergenic: 168869 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -reporting highest scoring path thru the trellis. -found 33 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 12762 -exon list size: 7 building trellis 11.1 22.2 33.3 44.4 55.6 66.7 77.8 88.9 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support -building DP trellis -building trellis in range 1 - 10975 -exon list size: 6 building trellis 12.5 25.0 37.5 50.0 62.5 75.0 87.5 -found 1 predictions from path traversal GOT 5prime partial gene. -reporting highest scoring path thru the trellis. -found 0 predictions persist after filtering for low support