[W::hts_idx_load3] The index file is older than the data file: 659_ciJ-T1-TRNA-1_B23WHTKLT4_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% (16063774) splicing reads. 272618 splicing junctions. 192301 known splicing junctions. 80317 novel splicing junctions.
sampling 10% (32127548) splicing reads. 324315 splicing junctions. 203314 known splicing junctions. 121001 novel splicing junctions.
sampling 15% (48191322) splicing reads. 356592 splicing junctions. 208658 known splicing junctions. 147934 novel splicing junctions.
sampling 20% (64255096) splicing reads. 379036 splicing junctions. 211938 known splicing junctions. 167098 novel splicing junctions.
sampling 25% (80318870) splicing reads. 395861 splicing junctions. 214107 known splicing junctions. 181754 novel splicing junctions.
sampling 30% (96382644) splicing reads. 408792 splicing junctions. 215698 known splicing junctions. 193094 novel splicing junctions.
sampling 35% (112446418) splicing reads. 419212 splicing junctions. 216974 known splicing junctions. 202238 novel splicing junctions.
sampling 40% (128510192) splicing reads. 427571 splicing junctions. 217916 known splicing junctions. 209655 novel splicing junctions.
sampling 45% (144573966) splicing reads. 434550 splicing junctions. 218673 known splicing junctions. 215877 novel splicing junctions.
sampling 50% (160637740) splicing reads. 440536 splicing junctions. 219263 known splicing junctions. 221273 novel splicing junctions.
sampling 55% (176701514) splicing reads. 445573 splicing junctions. 219751 known splicing junctions. 225822 novel splicing junctions.
sampling 60% (192765288) splicing reads. 449736 splicing junctions. 220165 known splicing junctions. 229571 novel splicing junctions.
sampling 65% (208829062) splicing reads. 453398 splicing junctions. 220536 known splicing junctions. 232862 novel splicing junctions.
sampling 70% (224892836) splicing reads. 456593 splicing junctions. 220828 known splicing junctions. 235765 novel splicing junctions.
sampling 75% (240956610) splicing reads. 459208 splicing junctions. 221086 known splicing junctions. 238122 novel splicing junctions.
sampling 80% (257020384) splicing reads. 461488 splicing junctions. 221285 known splicing junctions. 240203 novel splicing junctions.
sampling 85% (273084158) splicing reads. 463475 splicing junctions. 221456 known splicing junctions. 242019 novel splicing junctions.
sampling 90% (289147932) splicing reads. 465075 splicing junctions. 221619 known splicing junctions. 243456 novel splicing junctions.
sampling 95% (305211706) splicing reads. 466401 splicing junctions. 221727 known splicing junctions. 244674 novel splicing junctions.
sampling 100% (321275480) splicing reads. 467438 splicing junctions. 221832 known splicing junctions. 245606 novel splicing junctions.