[W::hts_idx_load3] The index file is older than the data file: 659_bua-T1-TRNA-1_B23MHV2LT4_1.Aligned.sortedByCoord.out.bam.bai
reading reference bed file:  ref_annot.bed  ...  Done! Total 386135 known splicing junctions.
Load BAM file ...  Done
shuffling alignments ... Done
sampling 5% (16793178) splicing reads. 253224 splicing junctions. 176054 known splicing junctions. 77170 novel splicing junctions.
sampling 10% (33586356) splicing reads. 313642 splicing junctions. 189112 known splicing junctions. 124530 novel splicing junctions.
sampling 15% (50379534) splicing reads. 357586 splicing junctions. 196427 known splicing junctions. 161159 novel splicing junctions.
sampling 20% (67172712) splicing reads. 392237 splicing junctions. 201212 known splicing junctions. 191025 novel splicing junctions.
sampling 25% (83965890) splicing reads. 420987 splicing junctions. 204738 known splicing junctions. 216249 novel splicing junctions.
sampling 30% (100759068) splicing reads. 445455 splicing junctions. 207429 known splicing junctions. 238026 novel splicing junctions.
sampling 35% (117552247) splicing reads. 466387 splicing junctions. 209630 known splicing junctions. 256757 novel splicing junctions.
sampling 40% (134345425) splicing reads. 484648 splicing junctions. 211328 known splicing junctions. 273320 novel splicing junctions.
sampling 45% (151138603) splicing reads. 500499 splicing junctions. 212790 known splicing junctions. 287709 novel splicing junctions.
sampling 50% (167931781) splicing reads. 514559 splicing junctions. 214050 known splicing junctions. 300509 novel splicing junctions.
sampling 55% (184724959) splicing reads. 527065 splicing junctions. 215067 known splicing junctions. 311998 novel splicing junctions.
sampling 60% (201518137) splicing reads. 538100 splicing junctions. 215957 known splicing junctions. 322143 novel splicing junctions.
sampling 65% (218311315) splicing reads. 547835 splicing junctions. 216729 known splicing junctions. 331106 novel splicing junctions.
sampling 70% (235104494) splicing reads. 556286 splicing junctions. 217377 known splicing junctions. 338909 novel splicing junctions.
sampling 75% (251897672) splicing reads. 563674 splicing junctions. 217949 known splicing junctions. 345725 novel splicing junctions.
sampling 80% (268690850) splicing reads. 570142 splicing junctions. 218463 known splicing junctions. 351679 novel splicing junctions.
sampling 85% (285484028) splicing reads. 575702 splicing junctions. 218894 known splicing junctions. 356808 novel splicing junctions.
sampling 90% (302277206) splicing reads. 580310 splicing junctions. 219243 known splicing junctions. 361067 novel splicing junctions.
sampling 95% (319070384) splicing reads. 584163 splicing junctions. 219542 known splicing junctions. 364621 novel splicing junctions.
sampling 100% (335863563) splicing reads. 587081 splicing junctions. 219760 known splicing junctions. 367321 novel splicing junctions.