[W::hts_idx_load3] The index file is older than the data file: 659_bjQ-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% (16053139) splicing reads. 262964 splicing junctions. 189935 known splicing junctions. 73029 novel splicing junctions.
sampling 10% (32106278) splicing reads. 320960 splicing junctions. 203015 known splicing junctions. 117945 novel splicing junctions.
sampling 15% (48159417) splicing reads. 362691 splicing junctions. 210159 known splicing junctions. 152532 novel splicing junctions.
sampling 20% (64212557) splicing reads. 395818 splicing junctions. 214859 known splicing junctions. 180959 novel splicing junctions.
sampling 25% (80265696) splicing reads. 423596 splicing junctions. 218310 known splicing junctions. 205286 novel splicing junctions.
sampling 30% (96318835) splicing reads. 447184 splicing junctions. 221042 known splicing junctions. 226142 novel splicing junctions.
sampling 35% (112371975) splicing reads. 467905 splicing junctions. 223230 known splicing junctions. 244675 novel splicing junctions.
sampling 40% (128425114) splicing reads. 485868 splicing junctions. 224965 known splicing junctions. 260903 novel splicing junctions.
sampling 45% (144478253) splicing reads. 501768 splicing junctions. 226435 known splicing junctions. 275333 novel splicing junctions.
sampling 50% (160531393) splicing reads. 515992 splicing junctions. 227693 known splicing junctions. 288299 novel splicing junctions.
sampling 55% (176584532) splicing reads. 528586 splicing junctions. 228760 known splicing junctions. 299826 novel splicing junctions.
sampling 60% (192637671) splicing reads. 539759 splicing junctions. 229668 known splicing junctions. 310091 novel splicing junctions.
sampling 65% (208690810) splicing reads. 549756 splicing junctions. 230474 known splicing junctions. 319282 novel splicing junctions.
sampling 70% (224743950) splicing reads. 558420 splicing junctions. 231157 known splicing junctions. 327263 novel splicing junctions.
sampling 75% (240797089) splicing reads. 566212 splicing junctions. 231728 known splicing junctions. 334484 novel splicing junctions.
sampling 80% (256850228) splicing reads. 572857 splicing junctions. 232227 known splicing junctions. 340630 novel splicing junctions.
sampling 85% (272903368) splicing reads. 578650 splicing junctions. 232659 known splicing junctions. 345991 novel splicing junctions.
sampling 90% (288956507) splicing reads. 583521 splicing junctions. 233023 known splicing junctions. 350498 novel splicing junctions.
sampling 95% (305009646) splicing reads. 587584 splicing junctions. 233303 known splicing junctions. 354281 novel splicing junctions.
sampling 100% (321062786) splicing reads. 590834 splicing junctions. 233527 known splicing junctions. 357307 novel splicing junctions.