[W::hts_idx_load3] The index file is older than the data file: 659_bUW-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% (18093180) splicing reads. 260299 splicing junctions. 181173 known splicing junctions. 79126 novel splicing junctions.
sampling 10% (36186360) splicing reads. 319018 splicing junctions. 193338 known splicing junctions. 125680 novel splicing junctions.
sampling 15% (54279541) splicing reads. 359543 splicing junctions. 199727 known splicing junctions. 159816 novel splicing junctions.
sampling 20% (72372721) splicing reads. 390718 splicing junctions. 203930 known splicing junctions. 186788 novel splicing junctions.
sampling 25% (90465901) splicing reads. 415622 splicing junctions. 206856 known splicing junctions. 208766 novel splicing junctions.
sampling 30% (108559082) splicing reads. 436199 splicing junctions. 209084 known splicing junctions. 227115 novel splicing junctions.
sampling 35% (126652262) splicing reads. 453300 splicing junctions. 210783 known splicing junctions. 242517 novel splicing junctions.
sampling 40% (144745442) splicing reads. 467930 splicing junctions. 212133 known splicing junctions. 255797 novel splicing junctions.
sampling 45% (162838623) splicing reads. 480366 splicing junctions. 213358 known splicing junctions. 267008 novel splicing junctions.
sampling 50% (180931803) splicing reads. 491028 splicing junctions. 214316 known splicing junctions. 276712 novel splicing junctions.
sampling 55% (199024983) splicing reads. 500227 splicing junctions. 215113 known splicing junctions. 285114 novel splicing junctions.
sampling 60% (217118164) splicing reads. 508352 splicing junctions. 215811 known splicing junctions. 292541 novel splicing junctions.
sampling 65% (235211344) splicing reads. 515397 splicing junctions. 216378 known splicing junctions. 299019 novel splicing junctions.
sampling 70% (253304524) splicing reads. 521688 splicing junctions. 216856 known splicing junctions. 304832 novel splicing junctions.
sampling 75% (271397705) splicing reads. 527141 splicing junctions. 217279 known splicing junctions. 309862 novel splicing junctions.
sampling 80% (289490885) splicing reads. 531739 splicing junctions. 217635 known splicing junctions. 314104 novel splicing junctions.
sampling 85% (307584065) splicing reads. 535820 splicing junctions. 217946 known splicing junctions. 317874 novel splicing junctions.
sampling 90% (325677246) splicing reads. 539208 splicing junctions. 218201 known splicing junctions. 321007 novel splicing junctions.
sampling 95% (343770426) splicing reads. 542033 splicing junctions. 218427 known splicing junctions. 323606 novel splicing junctions.
sampling 100% (361863607) splicing reads. 544404 splicing junctions. 218604 known splicing junctions. 325800 novel splicing junctions.