[W::hts_idx_load3] The index file is older than the data file: 659_bGc-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% (13994956) splicing reads. 253800 splicing junctions. 188469 known splicing junctions. 65331 novel splicing junctions.
sampling 10% (27989913) splicing reads. 305208 splicing junctions. 201055 known splicing junctions. 104153 novel splicing junctions.
sampling 15% (41984870) splicing reads. 341387 splicing junctions. 207767 known splicing junctions. 133620 novel splicing junctions.
sampling 20% (55979827) splicing reads. 368905 splicing junctions. 212085 known splicing junctions. 156820 novel splicing junctions.
sampling 25% (69974784) splicing reads. 391504 splicing junctions. 215202 known splicing junctions. 176302 novel splicing junctions.
sampling 30% (83969741) splicing reads. 410484 splicing junctions. 217642 known splicing junctions. 192842 novel splicing junctions.
sampling 35% (97964698) splicing reads. 426468 splicing junctions. 219577 known splicing junctions. 206891 novel splicing junctions.
sampling 40% (111959655) splicing reads. 440131 splicing junctions. 221099 known splicing junctions. 219032 novel splicing junctions.
sampling 45% (125954612) splicing reads. 451824 splicing junctions. 222419 known splicing junctions. 229405 novel splicing junctions.
sampling 50% (139949569) splicing reads. 462106 splicing junctions. 223483 known splicing junctions. 238623 novel splicing junctions.
sampling 55% (153944525) splicing reads. 470938 splicing junctions. 224335 known splicing junctions. 246603 novel splicing junctions.
sampling 60% (167939482) splicing reads. 478714 splicing junctions. 225094 known splicing junctions. 253620 novel splicing junctions.
sampling 65% (181934439) splicing reads. 485388 splicing junctions. 225736 known splicing junctions. 259652 novel splicing junctions.
sampling 70% (195929396) splicing reads. 491209 splicing junctions. 226328 known splicing junctions. 264881 novel splicing junctions.
sampling 75% (209924353) splicing reads. 496238 splicing junctions. 226823 known splicing junctions. 269415 novel splicing junctions.
sampling 80% (223919310) splicing reads. 500415 splicing junctions. 227195 known splicing junctions. 273220 novel splicing junctions.
sampling 85% (237914267) splicing reads. 503908 splicing junctions. 227520 known splicing junctions. 276388 novel splicing junctions.
sampling 90% (251909224) splicing reads. 506730 splicing junctions. 227785 known splicing junctions. 278945 novel splicing junctions.
sampling 95% (265904181) splicing reads. 508903 splicing junctions. 228007 known splicing junctions. 280896 novel splicing junctions.
sampling 100% (279899138) splicing reads. 510414 splicing junctions. 228142 known splicing junctions. 282272 novel splicing junctions.