-successfully changed directories to /suikou/files/m256y/yoshitake.kazutoshi/work/pp-dev/yoshitake/test/annotation~Funannotate/fun/predict_misc/EVM/scaffold_16/scaffold_16_14479265-14685163 -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 pasa_asmbl_17483.p1 Valid prediction for HiQ_model.g27041.t1 Valid prediction for GeneMark_model.69397_t Valid prediction for snap_scaffold_16-snap.2817-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for GlimmerHMM_glimmerT_40332-T1 Couldn't classify 147414, 147531 Couldn't classify 148706, 148797 Sorry, prediction pasa_asmbl_17494.p1 fails validation. (CCA) GC 147414-147531 GT GGG (CAA) AG 147720-147791 GT AGG (CCG) AG 147990-148625 GT GGG (GCC) AG 148706-148797 AT ATA -recovered pasa_asmbl_17494.p1, internal, 147720, 147791 -recovered pasa_asmbl_17494.p1, internal, 147990, 148625 Valid prediction for GeneMark_model.69410_t Valid prediction for GeneMark_model.69402_t Valid prediction for GeneMark_model.69420_t Valid prediction for snap_scaffold_16-snap.2829-T1 Valid prediction for GlimmerHMM_glimmerT_40338-T1 Valid prediction for GlimmerHMM_glimmerT_40340-T1 Valid prediction for GeneMark_model.69385_t Valid prediction for Augustus_model.g27042.t1 Valid prediction for GeneMark_model.69405_t Valid prediction for snap_scaffold_16-snap.2833-T1 Valid prediction for snap_scaffold_16-snap.2836-T1 Valid prediction for snap_scaffold_16-snap.2820-T1 Valid prediction for CodingQuarry_transcript_20096-T1 Valid prediction for Augustus_model.g27066.t1 Valid prediction for GeneMark_model.69401_t Valid prediction for snap_scaffold_16-snap.2799-T1 Valid prediction for GlimmerHMM_glimmerT_40337-T1 Couldn't classify 170831, 170882 Couldn't classify 171837, 171973 Sorry, prediction pasa_asmbl_17500.p1 fails validation. (GCG) GG 170831-170882 GT AGG (CCC) AG 171024-171211 GT TGG (ATC) AG 171332-171494 GT GGG (GGA) AG 171837-171973 GG GAG -recovered pasa_asmbl_17500.p1, internal, 171024, 171211 -recovered pasa_asmbl_17500.p1, internal, 171332, 171494 Valid prediction for GeneMark_model.69394_t Valid prediction for GeneMark_model.69424_t Valid prediction for snap_scaffold_16-snap.2822-T1 Valid prediction for CodingQuarry_transcript_20098-T1 Valid prediction for pasa_asmbl_17497.p3 Valid prediction for CodingQuarry_transcript_20091-T1 Valid prediction for snap_scaffold_16-snap.2827-T1 Valid prediction for GeneMark_model.69417_t Valid prediction for GeneMark_model.69380_t Valid prediction for GeneMark_model.69422_t Valid prediction for GlimmerHMM_glimmerT_40330-T1 Valid prediction for HiQ_model.g27068.t1 Valid prediction for Augustus_model.g27063.t1 Valid prediction for pasa_asmbl_17503.p1 Valid prediction for GlimmerHMM_glimmerT_40313-T1 Valid prediction for GeneMark_model.69383_t Valid prediction for GlimmerHMM_glimmerT_40331-T1 Valid prediction for snap_scaffold_16-snap.2806-T1 Valid prediction for GeneMark_model.69387_t Valid prediction for GeneMark_model.69415_t Valid prediction for snap_scaffold_16-snap.2814-T1 Valid prediction for snap_scaffold_16-snap.2830-T1 Valid prediction for CodingQuarry_transcript_20093-T1 Valid prediction for snap_scaffold_16-snap.2826-T1 Valid prediction for HiQ_model.g27057.t1 Valid prediction for GeneMark_model.69408_t Valid prediction for GeneMark_model.69399_t Couldn't classify 122151, 122165 Sorry, prediction pasa_asmbl_17493.p1 fails validation. (GCT) CG 122151-122165 GT ACG (GAT) AG 122489-122548 GT AGG (CTG) AG 122706-122777 GT AGG (GGC) AG 123031-123168 GT CAG (GTT) AG 123281-123365 GT AGG (CCG) AG 123566-123618 GT AAG (CTC) AG 123749-123866 GT TGG (AGG) AG 124097-124271 GT AGG (GAA) AG 124873-125023 GT AGG (GAT) AG 125168-125231 GT GGG (CTT) AG 125394-125413 GA AGG add_exon() Sorry, pasa_asmbl_17493.p1 123281-123365-terminal-3 is invalid. -recovered pasa_asmbl_17493.p1, terminal, 123281, 123365 -recovered pasa_asmbl_17493.p1, terminal, 125394, 125413 -recovered pasa_asmbl_17493.p1, internal, 122489, 122548 -recovered pasa_asmbl_17493.p1, internal, 122706, 122777 -recovered pasa_asmbl_17493.p1, internal, 123031, 123168 -recovered pasa_asmbl_17493.p1, internal, 123281, 123365 -recovered pasa_asmbl_17493.p1, internal, 123566, 123618 -recovered pasa_asmbl_17493.p1, internal, 123749, 123866 -recovered pasa_asmbl_17493.p1, internal, 124097, 124271 -recovered pasa_asmbl_17493.p1, internal, 124873, 125023 -recovered pasa_asmbl_17493.p1, internal, 125168, 125231 Valid prediction for snap_scaffold_16-snap.2792-T1 Couldn't classify 172930, 173340 Sorry, prediction pasa_asmbl_17501.p1 fails validation. (GAC) GA 172930-173340 CC AAC Valid prediction for Augustus_model.g27061.t1 Valid prediction for Augustus_model.g27060.t1 Valid prediction for snap_scaffold_16-snap.2824-T1 Valid prediction for snap_scaffold_16-snap.2837-T1 Valid prediction for GlimmerHMM_glimmerT_40345-T1 Valid prediction for snap_scaffold_16-snap.2808-T1 Valid prediction for pasa_asmbl_17506.p1 Valid prediction for snap_scaffold_16-snap.2795-T1 Sorry, intron length (4) is less than minimum required (10) Valid prediction for GlimmerHMM_glimmerT_40343-T1 Valid prediction for GlimmerHMM_glimmerT_40341-T1 Valid prediction for snap_scaffold_16-snap.2840-T1 Valid prediction for snap_scaffold_16-snap.2812-T1 Valid prediction for GeneMark_model.69412_t Valid prediction for CodingQuarry_transcript_20097-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 Augustus_model.g27048.t1 Valid prediction for CodingQuarry_transcript_20092-T1 Couldn't classify 182571, 182696 Couldn't classify 183024, 183252 Sorry, prediction pasa_asmbl_16624.p1 fails validation. (AGA) TC 182571-182696 GT AGG (GTA) AG 182784-182920 GT AGG (GGA) AG 183024-183252 AA AGA -recovered pasa_asmbl_16624.p1, internal, 182784, 182920 Valid prediction for pasa_asmbl_16669.p1 Valid prediction for GeneMark_model.69400_t Valid prediction for snap_scaffold_16-snap.2802-T1 Valid prediction for snap_scaffold_16-snap.2815-T1 Couldn't classify 119116, 119133 Couldn't classify 120184, 120278 Sorry, prediction pasa_asmbl_16649.p1 fails validation. (GAC) AT 119116-119133 GT TCG (GGA) AG 119226-119289 GT TTG (ATC) AG 119437-119535 GT GGG (AGA) AG 119644-119747 GT ATG (GAA) AG 119839-119977 GT GGG (ATA) AG 120184-120278 AC TCA -recovered pasa_asmbl_16649.p1, internal, 119226, 119289 -recovered pasa_asmbl_16649.p1, internal, 119437, 119535 -recovered pasa_asmbl_16649.p1, internal, 119644, 119747 -recovered pasa_asmbl_16649.p1, internal, 119839, 119977 Valid prediction for snap_scaffold_16-snap.2842-T1 Valid prediction for snap_scaffold_16-snap.2803-T1 Valid prediction for Augustus_model.g27053.t1 Couldn't classify 78209, 78520 Sorry, prediction pasa_asmbl_16658.p1 fails validation. (CCC) CC 78209-78520 TC TCT Valid prediction for GlimmerHMM_glimmerT_40335-T1 Valid prediction for GlimmerHMM_glimmerT_40316-T1 Valid prediction for Augustus_model.g27052.t1 Valid prediction for snap_scaffold_16-snap.2794-T1 Valid prediction for GeneMark_model.69413_t Valid prediction for snap_scaffold_16-snap.2835-T1 Valid prediction for GlimmerHMM_glimmerT_40336-T1 Valid prediction for GeneMark_model.69382_t Couldn't classify 143792, 143971 Sorry, prediction pasa_asmbl_16639.p1 fails validation. (AAG) AG 143792-143971 GT AGG (GTC) AG 144050-144215 GT AGG (AGG) AG 144300-144424 GT AGG (GGC) AG 144514-144822 GT AGG (GAC) AG 144952-145155 GT AGG (AAC) AG 145240-145536 GT GGG (GTG) AG 145678-145782 GT AGG (ACT) AG 145890-145985 GT CTG (GAG) AG 146067-146201 GT AGG (AAA) AG 146339-146359 AG GAA -recovered pasa_asmbl_16639.p1, terminal, 146339, 146359 -recovered pasa_asmbl_16639.p1, internal, 143792, 143971 -recovered pasa_asmbl_16639.p1, internal, 144050, 144215 -recovered pasa_asmbl_16639.p1, internal, 144300, 144424 -recovered pasa_asmbl_16639.p1, internal, 144514, 144822 -recovered pasa_asmbl_16639.p1, internal, 144952, 145155 -recovered pasa_asmbl_16639.p1, internal, 145240, 145536 -recovered pasa_asmbl_16639.p1, internal, 145678, 145782 -recovered pasa_asmbl_16639.p1, internal, 145890, 145985 -recovered pasa_asmbl_16639.p1, internal, 146067, 146201 Valid prediction for pasa_asmbl_16674.p1 Valid prediction for GeneMark_model.69395_t Valid prediction for snap_scaffold_16-snap.2818-T1 Valid prediction for snap_scaffold_16-snap.2811-T1 Couldn't classify 142533, 142865 Sorry, prediction pasa_asmbl_16640.p1 fails validation. (ATG) GA 135053-135253 GT AGG (ACT) AG 135366-135509 GT ACG (ACC) AG 135588-135744 GT AGG (ACA) AG 135837-135864 GT ACG (TGG) AG 136005-136110 GT AGG (GGT) AG 136194-136286 GT TCG (GGA) AG 136379-136442 GT TTG (ATC) AG 136590-136688 GT GGG (AGA) AG 136799-136902 GT ATG (GAA) AG 136992-137130 GT GGG (ATG) AG 137223-137341 GT AGG (GTT) AG 137500-137649 GT ATG (TTC) AG 137730-137900 GT AAG (CCC) AG 137982-138291 GT AGG (CCA) AG 138378-138454 GT GGG (GAG) AG 138557-138762 GT AGG (ATA) AG 138885-139008 GT AGG (GTG) AG 139091-139227 GT AGG (GGA) AG 139308-139563 GT CTG (GAA) AG 139641-139883 GT AGG (GTT) AG 139960-140136 GT ATG (CTG) AG 140229-140374 GT AAG (GAA) AG 142326-142416 GT AGG (GCC) AG 142533-142865 CT AGC -recovered pasa_asmbl_16640.p1, initial, 135053, 135253 add_exon() Sorry, pasa_asmbl_16640.p1 137223-137341-initial-1 is invalid. -recovered pasa_asmbl_16640.p1, initial, 137223, 137341 -recovered pasa_asmbl_16640.p1, internal, 135366, 135509 -recovered pasa_asmbl_16640.p1, internal, 135588, 135744 -recovered pasa_asmbl_16640.p1, internal, 135837, 135864 -recovered pasa_asmbl_16640.p1, internal, 136005, 136110 -recovered pasa_asmbl_16640.p1, internal, 136194, 136286 -recovered pasa_asmbl_16640.p1, internal, 136379, 136442 -recovered pasa_asmbl_16640.p1, internal, 136590, 136688 -recovered pasa_asmbl_16640.p1, internal, 136799, 136902 -recovered pasa_asmbl_16640.p1, internal, 136992, 137130 -recovered pasa_asmbl_16640.p1, internal, 137223, 137341 -recovered pasa_asmbl_16640.p1, internal, 137500, 137649 -recovered pasa_asmbl_16640.p1, internal, 137730, 137900 -recovered pasa_asmbl_16640.p1, internal, 137982, 138291 -recovered pasa_asmbl_16640.p1, internal, 138378, 138454 -recovered pasa_asmbl_16640.p1, internal, 138557, 138762 -recovered pasa_asmbl_16640.p1, internal, 138885, 139008 -recovered pasa_asmbl_16640.p1, internal, 139091, 139227 -recovered pasa_asmbl_16640.p1, internal, 139308, 139563 -recovered pasa_asmbl_16640.p1, internal, 139641, 139883 -recovered pasa_asmbl_16640.p1, internal, 139960, 140136 -recovered pasa_asmbl_16640.p1, internal, 140229, 140374 -recovered pasa_asmbl_16640.p1, internal, 142326, 142416 Valid prediction for HiQ_model.g27044.t1 Valid prediction for Augustus_model.g27064.t1 Valid prediction for snap_scaffold_16-snap.2821-T1 Couldn't classify 62703, 63614 Sorry, prediction pasa_asmbl_16667.p1 fails validation. (ACA) CC 62703-63614 TT CCT Couldn't classify 111199, 111456 Sorry, prediction pasa_asmbl_16651.p1 fails validation. (ATG) AG 110575-110781 GT AGG (GAC) AG 110911-111114 GT AGG (AAC) AG 111199-111456 AA TGA -recovered pasa_asmbl_16651.p1, initial, 110575, 110781 -recovered pasa_asmbl_16651.p1, internal, 110575, 110781 -recovered pasa_asmbl_16651.p1, internal, 110911, 111114 Valid prediction for GeneMark_model.69423_t Valid prediction for GlimmerHMM_glimmerT_40325-T1 Couldn't classify 170468, 170524 Sorry, prediction pasa_asmbl_16628.p1 fails validation. (GAC) AG 170468-170524 GT ATG (CTG) AG 170617-170762 GT AAG (GAA) AG 170844-170934 GT AGG (GCC) AG 171051-171440 GT AAG (ACA) AG 171534-171660 GT TGG (GTG) AG 171750-171868 GT AGG (GCA) AG 171942-172138 GT AAG (GAA) AG 172254-172437 GT AGG (GTC) AG 172516-172681 GT AGG (AGG) AG 172766-172890 GT AGG (GGC) AG 173037-173345 GT AGG (GAC) AG 173475-173678 GT AGG (AAC) AG 173762-174058 GT GGG (GTG) AG 174192-174296 GT AGG (ACT) AG 174404-174499 GT CTG (GAG) AG 174582-174716 GT AGG (AAA) AG 174809-174829 AG GAA -recovered pasa_asmbl_16628.p1, terminal, 174809, 174829 -recovered pasa_asmbl_16628.p1, internal, 170468, 170524 -recovered pasa_asmbl_16628.p1, internal, 170617, 170762 -recovered pasa_asmbl_16628.p1, internal, 170844, 170934 -recovered pasa_asmbl_16628.p1, internal, 171051, 171440 -recovered pasa_asmbl_16628.p1, internal, 171534, 171660 -recovered pasa_asmbl_16628.p1, internal, 171750, 171868 -recovered pasa_asmbl_16628.p1, internal, 171942, 172138 -recovered pasa_asmbl_16628.p1, internal, 172254, 172437 -recovered pasa_asmbl_16628.p1, internal, 172516, 172681 -recovered pasa_asmbl_16628.p1, internal, 172766, 172890 -recovered pasa_asmbl_16628.p1, internal, 173037, 173345 -recovered pasa_asmbl_16628.p1, internal, 173475, 173678 -recovered pasa_asmbl_16628.p1, internal, 173762, 174058 -recovered pasa_asmbl_16628.p1, internal, 174192, 174296 -recovered pasa_asmbl_16628.p1, internal, 174404, 174499 -recovered pasa_asmbl_16628.p1, internal, 174582, 174716 Couldn't classify 125127, 125210 Sorry, prediction pasa_asmbl_16646.p1 fails validation. (ATG) AG 124323-124562 GT AAG (ACA) AG 124656-124782 GT TGG (GTG) AG 124930-125048 GT AGG (GCA) AG 125127-125210 GC AGG -recovered pasa_asmbl_16646.p1, initial, 124323, 124562 -recovered pasa_asmbl_16646.p1, internal, 124323, 124562 -recovered pasa_asmbl_16646.p1, internal, 124656, 124782 -recovered pasa_asmbl_16646.p1, internal, 124930, 125048 -recovered pasa_asmbl_16646.p1, internal, 125127, 125210 Valid prediction for Augustus_model.g27054.t1 Valid prediction for Augustus_model.g27045.t1 Valid prediction for GeneMark_model.69391_t Valid prediction for snap_scaffold_16-snap.2825-T1 Valid prediction for snap_scaffold_16-snap.2838-T1 Sorry, intron length (3) is less than minimum required (10) Valid prediction for GeneMark_model.69403_t Valid prediction for pasa_asmbl_16659.p1 Valid prediction for Augustus_model.g27056.t1 Valid prediction for snap_scaffold_16-snap.2798-T1 Valid prediction for GlimmerHMM_glimmerT_40322-T1 Valid prediction for GeneMark_model.69384_t Valid prediction for snap_scaffold_16-snap.2804-T1 Couldn't classify 118368, 118511 Sorry, prediction pasa_asmbl_16650.p1 fails validation. (ATG) GA 117559-117759 GT AGG (ACA) AG 118146-118289 GT ACG (ACC) AG 118368-118511 TA AGT -recovered pasa_asmbl_16650.p1, initial, 117559, 117759 -recovered pasa_asmbl_16650.p1, internal, 118146, 118289 Valid prediction for GeneMark_model.69407_t Valid prediction for GlimmerHMM_glimmerT_40333-T1 Couldn't classify 121757, 121793 Couldn't classify 122373, 122430 Sorry, prediction pasa_asmbl_16648.p1 fails validation. (TTG) GT 121757-121793 GT TGG (CTG) AG 121904-121971 GT GGG (GAG) AG 122089-122294 GT AGG (ATA) AG 122373-122430 GC AGG -recovered pasa_asmbl_16648.p1, internal, 121904, 121971 -recovered pasa_asmbl_16648.p1, internal, 122089, 122294 -recovered pasa_asmbl_16648.p1, internal, 122373, 122430 Valid prediction for snap_scaffold_16-snap.2831-T1 Couldn't classify 64041, 65987 Sorry, prediction pasa_asmbl_16666.p1 fails validation. (GAC) CT 64041-65987 CC AAC Valid prediction for snap_scaffold_16-snap.2841-T1 Valid prediction for GeneMark_model.69416_t Valid prediction for CodingQuarry_transcript_20095-T1 Valid prediction for snap_scaffold_16-snap.2807-T1 Valid prediction for HiQ_model.g27058.t1 Valid prediction for snap_scaffold_16-snap.2819-T1 Valid prediction for Augustus_model.g27046.t1 Valid prediction for GeneMark_model.69406_t Valid prediction for HiQ_model.g27049.t1 Couldn't classify 128460, 128507 Sorry, prediction pasa_asmbl_16645.p1 fails validation. (AAA) AC 128460-128507 GT CTG (GAA) AG 128590-128886 CT AGC -recovered pasa_asmbl_16645.p1, terminal, 128590, 128886 Valid prediction for Augustus_model.g27067.t1 Couldn't classify 66661, 67035 Sorry, prediction pasa_asmbl_16665.p1 fails validation. (ACC) AC 66661-67035 GG AAG Valid prediction for GeneMark_model.69419_t Valid prediction for snap_scaffold_16-snap.2801-T1 Valid prediction for GlimmerHMM_glimmerT_40323-T1 Valid prediction for GeneMark_model.69398_t Valid prediction for GeneMark_model.69381_t Valid prediction for GlimmerHMM_glimmerT_40327-T1 Valid prediction for GlimmerHMM_glimmerT_40318-T1 Valid prediction for GeneMark_model.69388_t Valid prediction for snap_scaffold_16-snap.2796-T1 Valid prediction for snap_scaffold_16-snap.2839-T1 Valid prediction for GeneMark_model.69418_t Valid prediction for GlimmerHMM_glimmerT_40317-T1 Valid prediction for GeneMark_model.69409_t Valid prediction for GlimmerHMM_glimmerT_40328-T1 Couldn't classify 126913, 127191 Couldn't classify 128200, 128277 Sorry, prediction pasa_asmbl_16752.p1 fails validation. (CAG) AC 126913-127191 GT GGG (GTG) AG 128200-128277 AG AGA Couldn't classify 78524, 78868 Sorry, prediction pasa_asmbl_16657.p2 fails validation. (CTG) CT 78524-78868 CA CAC Valid prediction for GeneMark_model.69396_t Couldn't classify 183687, 183860 Sorry, prediction pasa_asmbl_16622.p1 fails validation. (AAA) TT 183687-183860 GT ATG (CTG) AG 183953-184098 GT AAG (GAA) AG 184180-184270 GT AGG (GCC) AG 184387-184776 GT AAG (ACA) AG 184870-184996 GT TGG (GTG) AG 185093-185211 GT AGG (GCA) AG 185291-185487 GT AAG (GAA) AG 185604-185787 GT AGG (GTC) AG 185866-186031 GT AGG (AGG) AG 186116-186240 GT AGG (GGC) AG 186330-186638 GT AGG (GAC) AG 186768-186971 GT AGG (AAC) AG 187056-187352 GT GGG (GTG) AG 187493-187597 GT AGG (ACT) AG 187705-187800 GT CTG (GAG) AG 187890-188024 GT AGG (AAG) AG 189538-189558 AG GAA -recovered pasa_asmbl_16622.p1, terminal, 189538, 189558 -recovered pasa_asmbl_16622.p1, internal, 183953, 184098 -recovered pasa_asmbl_16622.p1, internal, 184180, 184270 -recovered pasa_asmbl_16622.p1, internal, 184387, 184776 -recovered pasa_asmbl_16622.p1, internal, 184870, 184996 -recovered pasa_asmbl_16622.p1, internal, 185093, 185211 -recovered pasa_asmbl_16622.p1, internal, 185291, 185487 -recovered pasa_asmbl_16622.p1, internal, 185604, 185787 -recovered pasa_asmbl_16622.p1, internal, 185866, 186031 -recovered pasa_asmbl_16622.p1, internal, 186116, 186240 -recovered pasa_asmbl_16622.p1, internal, 186330, 186638 -recovered pasa_asmbl_16622.p1, internal, 186768, 186971 -recovered pasa_asmbl_16622.p1, internal, 187056, 187352 -recovered pasa_asmbl_16622.p1, internal, 187493, 187597 -recovered pasa_asmbl_16622.p1, internal, 187705, 187800 -recovered pasa_asmbl_16622.p1, internal, 187890, 188024 Valid prediction for GeneMark_model.69389_t Couldn't classify 154612, 154755 Sorry, prediction pasa_asmbl_16638.p1 fails validation. (ATG) GA 149462-149662 GT AGG (ACA) AG 149797-149940 GT ACG (ACC) AG 150019-150175 GT AGG (ACA) AG 150269-150296 GT ACG (AGG) AG 150429-150534 GT AGG (GGT) AG 150624-150716 GT TCG (GGA) AG 150809-150872 GT TTG (ATC) AG 151020-151118 GT GGG (AGA) AG 151229-151332 GT ATG (GAA) AG 151422-151560 GT GGG (ATA) AG 151735-151853 GT AGG (GTG) AG 152035-152184 GT ATG (TTC) AG 152286-152456 GT AGG (CCC) AG 152598-152910 GT TGG (CTG) AG 153003-153067 GT GGG (GAG) AG 153186-153391 GT AGG (ATA) AG 153500-153623 GT AGG (GTA) AG 153710-153846 GT AGG (GGA) AG 153952-154207 GT CTG (GAA) AG 154293-154535 GT AGG (GTT) AG 154612-154755 GC AGG -recovered pasa_asmbl_16638.p1, initial, 149462, 149662 -recovered pasa_asmbl_16638.p1, internal, 149797, 149940 -recovered pasa_asmbl_16638.p1, internal, 150019, 150175 -recovered pasa_asmbl_16638.p1, internal, 150269, 150296 -recovered pasa_asmbl_16638.p1, internal, 150429, 150534 -recovered pasa_asmbl_16638.p1, internal, 150624, 150716 -recovered pasa_asmbl_16638.p1, internal, 150809, 150872 -recovered pasa_asmbl_16638.p1, internal, 151020, 151118 -recovered pasa_asmbl_16638.p1, internal, 151229, 151332 -recovered pasa_asmbl_16638.p1, internal, 151422, 151560 -recovered pasa_asmbl_16638.p1, internal, 151735, 151853 -recovered pasa_asmbl_16638.p1, internal, 152035, 152184 -recovered pasa_asmbl_16638.p1, internal, 152286, 152456 -recovered pasa_asmbl_16638.p1, internal, 152598, 152910 -recovered pasa_asmbl_16638.p1, internal, 153003, 153067 -recovered pasa_asmbl_16638.p1, internal, 153186, 153391 -recovered pasa_asmbl_16638.p1, internal, 153500, 153623 -recovered pasa_asmbl_16638.p1, internal, 153710, 153846 -recovered pasa_asmbl_16638.p1, internal, 153952, 154207 -recovered pasa_asmbl_16638.p1, internal, 154293, 154535 -recovered pasa_asmbl_16638.p1, internal, 154612, 154755 Valid prediction for snap_scaffold_16-snap.2813-T1 Valid prediction for snap_scaffold_16-snap.2800-T1 Valid prediction for GeneMark_model.69392_t Valid prediction for snap_scaffold_16-snap.2810-T1 Valid prediction for GlimmerHMM_glimmerT_40326-T1 Couldn't classify 28501, 28744 Couldn't classify 29600, 29860 Sorry, prediction pasa_asmbl_16672.p1 fails validation. (AAT) GA 28501-28744 GT AGG (CAC) AG 29013-29103 GT TGG (CAG) AG 29176-29239 GT TGG (ACC) AG 29600-29860 CA AAC -recovered pasa_asmbl_16672.p1, internal, 29013, 29103 -recovered pasa_asmbl_16672.p1, internal, 29176, 29239 Valid prediction for HiQ_model.g27062.t1 Valid prediction for Augustus_model.g27047.t1 Valid prediction for GlimmerHMM_glimmerT_40329-T1 Valid prediction for GeneMark_model.69393_t Couldn't classify 60835, 60915 Couldn't classify 62008, 62183 Sorry, prediction pasa_asmbl_16764.p1 fails validation. (CCA) AA 60835-60915 GT TAG (GCT) AG 61780-61831 GT AGG (ATA) AG 62008-62183 GA AGG -recovered pasa_asmbl_16764.p1, internal, 61780, 61831 Valid prediction for GlimmerHMM_glimmerT_40315-T1 Valid prediction for GlimmerHMM_glimmerT_40319-T1 Valid prediction for HiQ_model.g27051.t1 Valid prediction for Augustus_model.g27059.t1 Valid prediction for GlimmerHMM_glimmerT_40320-T1 Valid prediction for snap_scaffold_16-snap.2809-T1 Couldn't classify 179683, 179755 Sorry, prediction pasa_asmbl_16626.p1 fails validation. (ATG) GA 178781-178981 GT AGG (ACT) AG 179084-179227 GT ACG (ACC) AG 179306-179462 GT AGG (ACA) AG 179579-179606 GT ACG (TGG) AG 179683-179755 GG TGG -recovered pasa_asmbl_16626.p1, initial, 178781, 178981 -recovered pasa_asmbl_16626.p1, internal, 179084, 179227 -recovered pasa_asmbl_16626.p1, internal, 179306, 179462 -recovered pasa_asmbl_16626.p1, internal, 179579, 179606 Valid prediction for GlimmerHMM_glimmerT_40314-T1 Valid prediction for CodingQuarry_transcript_20094-T1 Valid prediction for snap_scaffold_16-snap.2797-T1 Valid prediction for GlimmerHMM_glimmerT_40334-T1 Valid prediction for Augustus_model.g27043.t1 Valid prediction for GlimmerHMM_glimmerT_40321-T1 Valid prediction for snap_scaffold_16-snap.2832-T1 Valid prediction for GeneMark_model.69386_t Valid prediction for GeneMark_model.69411_t Valid prediction for snap_scaffold_16-snap.2828-T1 Valid prediction for snap_scaffold_16-snap.2805-T1 Valid prediction for GeneMark_model.69404_t Couldn't classify 166286, 166381 Sorry, prediction pasa_asmbl_16634.p1 fails validation. (ATG) GA 165973-166173 GT AGG (ACT) AG 166286-166381 NN CTN -recovered pasa_asmbl_16634.p1, initial, 165973, 166173 Valid prediction for GeneMark_model.69421_t Valid prediction for GlimmerHMM_glimmerT_40339-T1 Valid prediction for snap_scaffold_16-snap.2816-T1 Valid prediction for Augustus_model.g27055.t1 Valid prediction for Augustus_model.g27050.t1 Valid prediction for snap_scaffold_16-snap.2823-T1 Valid prediction for snap_scaffold_16-snap.2834-T1 Valid prediction for GeneMark_model.69390_t Valid prediction for GlimmerHMM_glimmerT_40344-T1 Couldn't classify 181116, 181259 Couldn't classify 182259, 182417 Sorry, prediction pasa_asmbl_16625.p1 fails validation. (TAC) AC 181116-181259 GT ATG (TTC) AG 181344-181514 GT AGG (CCC) AG 181659-181968 GT TGG (CCC) AG 182080-182156 GT GGG (GAG) AG 182259-182417 AG GCA -recovered pasa_asmbl_16625.p1, internal, 181344, 181514 -recovered pasa_asmbl_16625.p1, internal, 181659, 181968 -recovered pasa_asmbl_16625.p1, internal, 182080, 182156 Couldn't classify 167176, 167292 Couldn't classify 170029, 170076 Sorry, prediction pasa_asmbl_16632.p1 fails validation. (ACG) AC 167176-167292 GT AGG (GTG) AG 167813-167962 GT ATG (TTC) AG 168047-168217 GT AGG (CCC) AG 168362-168674 GT TGG (CTG) AG 168769-168836 GT GGG (GAG) AG 168953-169158 GT AGG (ATA) AG 169251-169374 GT AGG (GTA) AG 169461-169597 GT AGG (GGA) AG 169678-169933 GT CTG (GAA) AG 170029-170076 AA TCA -recovered pasa_asmbl_16632.p1, internal, 167813, 167962 -recovered pasa_asmbl_16632.p1, internal, 168047, 168217 -recovered pasa_asmbl_16632.p1, internal, 168362, 168674 -recovered pasa_asmbl_16632.p1, internal, 168769, 168836 -recovered pasa_asmbl_16632.p1, internal, 168953, 169158 -recovered pasa_asmbl_16632.p1, internal, 169251, 169374 -recovered pasa_asmbl_16632.p1, internal, 169461, 169597 -recovered pasa_asmbl_16632.p1, internal, 169678, 169933 Valid prediction for GlimmerHMM_glimmerT_40324-T1 Valid prediction for snap_scaffold_16-snap.2793-T1 Couldn't classify 158249, 158287 Sorry, prediction pasa_asmbl_16636.p1 fails validation. (ATG) AG 157625-157831 GT AGG (GAC) AG 157961-158164 GT AGG (AAC) AG 158249-158287 CG GCC -recovered pasa_asmbl_16636.p1, initial, 157625, 157831 -recovered pasa_asmbl_16636.p1, internal, 157625, 157831 -recovered pasa_asmbl_16636.p1, internal, 157961, 158164 Valid prediction for GeneMark_model.69414_t Valid prediction for CodingQuarry_transcript_20090-T1 Valid prediction for HiQ_model.g27065.t1 Valid prediction for GlimmerHMM_glimmerT_40342-T1 Couldn't classify 107138, 107386 Couldn't classify 108060, 108131 Sorry, prediction pasa_asmbl_16654.p1 fails validation. (TTG) CC 107138-107386 GT CTG (GAA) AG 107472-107714 GT AGG (GTT) AG 107791-107967 GT ATG (CTG) AG 108060-108131 GA GAG -recovered pasa_asmbl_16654.p1, internal, 107472, 107714 -recovered pasa_asmbl_16654.p1, internal, 107791, 107967 -loading the search evidence (protein and EST search results, strand: -) -scoring exons (strand: -)Error with prediction: snap lend_intergenic: 11475, rend_intergenic: 3269 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 39927, rend_intergenic: 33849 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 70847, rend_intergenic: 60094 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 83111, rend_intergenic: 78697 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 96174, rend_intergenic: 94353 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 97446, rend_intergenic: 96368 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 111032, rend_intergenic: 108275 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 129160, rend_intergenic: 127467 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 129510, rend_intergenic: 129200 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134344, rend_intergenic: 129764 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 157023, rend_intergenic: 154718 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 158727, rend_intergenic: 157940 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 163399, rend_intergenic: 160328 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 169981, rend_intergenic: 168093 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 183835, rend_intergenic: 180430 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 188991, rend_intergenic: 185578 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 205248, rend_intergenic: 195873 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. -building DP trellis -building trellis in range 1 - 205899 -exon list size: 1030 building trellis 0.1 0.2 0.3 0.4 0.5 0.6 0.7 0.8 0.9 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.6 1.7 1.8 1.9 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 2.9 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 3.8 3.9 4.0 4.1 4.2 4.3 4.4 4.5 4.6 4.7 4.7 4.8 4.9 5.0 5.1 5.2 5.3 5.4 5.5 5.6 5.7 5.8 5.9 6.0 6.1 6.2 6.3 6.4 6.5 6.6 6.7 6.8 6.9 7.0 7.1 7.2 7.3 7.4 7.5 7.6 7.7 7.8 7.8 7.9 8.0 8.1 8.2 8.3 8.4 8.5 8.6 8.7 8.8 8.9 9.0 9.1 9.2 9.3 9.4 9.5 9.6 9.7 9.8 9.9 10.0 10.1 10.2 10.3 10.4 10.5 10.6 10.7 10.8 10.9 10.9 11.0 11.1 11.2 11.3 11.4 11.5 11.6 11.7 11.8 11.9 12.0 12.1 12.2 12.3 12.4 12.5 12.6 12.7 12.8 12.9 13.0 13.1 13.2 13.3 13.4 13.5 13.6 13.7 13.8 13.9 14.0 14.1 14.1 14.2 14.3 14.4 14.5 14.6 14.7 14.8 14.9 15.0 15.1 15.2 15.3 15.4 15.5 15.6 15.7 15.8 15.9 16.0 16.1 16.2 16.3 16.4 16.5 16.6 16.7 16.8 16.9 17.0 17.1 17.2 17.2 17.3 17.4 17.5 17.6 17.7 17.8 17.9 18.0 18.1 18.2 18.3 18.4 18.5 18.6 18.7 18.8 18.9 19.0 19.1 19.2 19.3 19.4 19.5 19.6 19.7 19.8 19.9 20.0 20.1 20.2 20.3 20.3 20.4 20.5 20.6 20.7 20.8 20.9 21.0 21.1 21.2 21.3 21.4 21.5 21.6 21.7 21.8 21.9 22.0 22.1 22.2 22.3 22.4 22.5 22.6 22.7 22.8 22.9 23.0 23.1 23.2 23.3 23.4 23.4 23.5 23.6 23.7 23.8 23.9 24.0 24.1 24.2 24.3 24.4 24.5 24.6 24.7 24.8 24.9 25.0 25.1 25.2 25.3 25.4 25.5 25.6 25.7 25.8 25.9 26.0 26.1 26.2 26.3 26.4 26.5 26.6 26.6 26.7 26.8 26.9 27.0 27.1 27.2 27.3 27.4 27.5 27.6 27.7 27.8 27.9 28.0 28.1 28.2 28.3 28.4 28.5 28.6 28.7 28.8 28.9 29.0 29.1 29.2 29.3 29.4 29.5 29.6 29.7 29.7 29.8 29.9 30.0 30.1 30.2 30.3 30.4 30.5 30.6 30.7 30.8 30.9 31.0 31.1 31.2 31.3 31.4 31.5 31.6 31.7 31.8 31.9 32.0 32.1 32.2 32.3 32.4 32.5 32.6 32.7 32.8 32.8 32.9 33.0 33.1 33.2 33.3 33.4 33.5 33.6 33.7 33.8 33.9 34.0 34.1 34.2 34.3 34.4 34.5 34.6 34.7 34.8 34.9 35.0 35.1 35.2 35.3 35.4 35.5 35.6 35.7 35.8 35.9 35.9 36.0 36.1 36.2 36.3 36.4 36.5 36.6 36.7 36.8 36.9 37.0 37.1 37.2 37.3 37.4 37.5 37.6 37.7 37.8 37.9 38.0 38.1 38.2 38.3 38.4 38.5 38.6 38.7 38.8 38.9 39.0 39.1 39.1 39.2 39.3 39.4 39.5 39.6 39.7 39.8 39.9 40.0 40.1 40.2 40.3 40.4 40.5 40.6 40.7 40.8 40.9 41.0 41.1 41.2 41.3 41.4 41.5 41.6 41.7 41.8 41.9 42.0 42.1 42.2 42.2 42.3 42.4 42.5 42.6 42.7 42.8 42.9 43.0 43.1 43.2 43.3 43.4 43.5 43.6 43.7 43.8 43.9 44.0 44.1 44.2 44.3 44.4 44.5 44.6 44.7 44.8 44.9 45.0 45.1 45.2 45.3 45.3 45.4 45.5 45.6 45.7 45.8 45.9 46.0 46.1 46.2 46.3 46.4 46.5 46.6 46.7 46.8 46.9 47.0 47.1 47.2 47.3 47.4 47.5 47.6 47.7 47.8 47.9 48.0 48.1 48.2 48.3 48.4 48.4 48.5 48.6 48.7 48.8 48.9 49.0 49.1 49.2 49.3 49.4 49.5 49.6 49.7 49.8 49.9 50.0 50.1 50.2 50.3 50.4 50.5 50.6 50.7 50.8 50.9 51.0 51.1 51.2 51.3 51.4 51.5 51.6 51.6 51.7 51.8 51.9 52.0 52.1 52.2 52.3 52.4 52.5 52.6 52.7 52.8 52.9 53.0 53.1 53.2 53.3 53.4 53.5 53.6 53.7 53.8 53.9 54.0 54.1 54.2 54.3 54.4 54.5 54.6 54.7 54.7 54.8 54.9 55.0 55.1 55.2 55.3 55.4 55.5 55.6 55.7 55.8 55.9 56.0 56.1 56.2 56.3 56.4 56.5 56.6 56.7 56.8 56.9 57.0 57.1 57.2 57.3 57.4 57.5 57.6 57.7 57.8 57.8 57.9 58.0 58.1 58.2 58.3 58.4 58.5 58.6 58.7 58.8 58.9 59.0 59.1 59.2 59.3 59.4 59.5 59.6 59.7 59.8 59.9 60.0 60.1 60.2 60.3 60.4 60.5 60.6 60.7 60.8 60.9 60.9 61.0 61.1 61.2 61.3 61.4 61.5 61.6 61.7 61.8 61.9 62.0 62.1 62.2 62.3 62.4 62.5 62.6 62.7 62.8 62.9 63.0 63.1 63.2 63.3 63.4 63.5 63.6 63.7 63.8 63.9 64.0 64.1 64.1 64.2 64.3 64.4 64.5 64.6 64.7 64.8 64.9 65.0 65.1 65.2 65.3 65.4 65.5 65.6 65.7 65.8 65.9 66.0 66.1 66.2 66.3 66.4 66.5 66.6 66.7 66.8 66.9 67.0 67.1 67.2 67.2 67.3 67.4 67.5 67.6 67.7 67.8 67.9 68.0 68.1 68.2 68.3 68.4 68.5 68.6 68.7 68.8 68.9 69.0 69.1 69.2 69.3 69.4 69.5 69.6 69.7 69.8 69.9 70.0 70.1 70.2 70.3 70.3 70.4 70.5 70.6 70.7 70.8 70.9 71.0 71.1 71.2 71.3 71.4 71.5 71.6 71.7 71.8 71.9 72.0 72.1 72.2 72.3 72.4 72.5 72.6 72.7 72.8 72.9 73.0 73.1 73.2 73.3 73.4 73.4 73.5 73.6 73.7 73.8 73.9 74.0 74.1 74.2 74.3 74.4 74.5 74.6 74.7 74.8 74.9 75.0 75.1 75.2 75.3 75.4 75.5 75.6 75.7 75.8 75.9 76.0 76.1 76.2 76.3 76.4 76.5 76.6 76.6 76.7 76.8 76.9 77.0 77.1 77.2 77.3 77.4 77.5 77.6 77.7 77.8 77.9 78.0 78.1 78.2 78.3 78.4 78.5 78.6 78.7 78.8 78.9 79.0 79.1 79.2 79.3 79.4 79.5 79.6 79.7 79.7 79.8 79.9 80.0 80.1 80.2 80.3 80.4 80.5 80.6 80.7 80.8 80.9 81.0 81.1 81.2 81.3 81.4 81.5 81.6 81.7 81.8 81.9 82.0 82.1 82.2 82.3 82.4 82.5 82.6 82.7 82.8 82.8 82.9 83.0 83.1 83.2 83.3 83.4 83.5 83.6 83.7 83.8 83.9 84.0 84.1 84.2 84.3 84.4 84.5 84.6 84.7 84.8 84.9 85.0 85.1 85.2 85.3 85.4 85.5 85.6 85.7 85.8 85.9 85.9 86.0 86.1 86.2 86.3 86.4 86.5 86.6 86.7 86.8 86.9 87.0 87.1 87.2 87.3 87.4 87.5 87.6 87.7 87.8 87.9 88.0 88.1 88.2 88.3 88.4 88.5 88.6 88.7 88.8 88.9 89.0 89.1 89.1 89.2 89.3 89.4 89.5 89.6 89.7 89.8 89.9 90.0 90.1 90.2 90.3 90.4 90.5 90.6 90.7 90.8 90.9 91.0 91.1 91.2 91.3 91.4 91.5 91.6 91.7 91.8 91.9 92.0 92.1 92.2 92.2 92.3 92.4 92.5 92.6 92.7 92.8 92.9 93.0 93.1 93.2 93.3 93.4 93.5 93.6 93.7 93.8 93.9 94.0 94.1 94.2 94.3 94.4 94.5 94.6 94.7 94.8 94.9 95.0 95.1 95.2 95.3 95.3 95.4 95.5 95.6 95.7 95.8 95.9 96.0 96.1 96.2 96.3 96.4 96.5 96.6 96.7 96.8 96.9 97.0 97.1 97.2 97.3 97.4 97.5 97.6 97.7 97.8 97.9 98.0 98.1 98.2 98.3 98.4 98.4 98.5 98.6 98.7 98.8 98.9 99.0 99.1 99.2 99.3 99.4 99.5 99.6 99.7 99.8 99.9 -found 37 predictions from path traversal Error with prediction: snap lend_intergenic: 11475, rend_intergenic: 3269 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 39927, rend_intergenic: 33849 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 70847, rend_intergenic: 60094 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 83111, rend_intergenic: 78697 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 96174, rend_intergenic: 94353 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 97446, rend_intergenic: 96368 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 111032, rend_intergenic: 108275 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 129160, rend_intergenic: 127467 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 129510, rend_intergenic: 129200 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 134344, rend_intergenic: 129764 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 157023, rend_intergenic: 154718 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 158727, rend_intergenic: 157940 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 163399, rend_intergenic: 160328 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 169981, rend_intergenic: 168093 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 183835, rend_intergenic: 180430 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 188991, rend_intergenic: 185578 at /venv/opt/evidencemodeler-1.1.1/evidence_modeler.pl line 3218. Error with prediction: snap lend_intergenic: 205248, rend_intergenic: 195873 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