[W::hts_idx_load3] The index file is older than the data file: 659_cRa-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% (21001723) splicing reads. 270367 splicing junctions. 187854 known splicing junctions. 82513 novel splicing junctions.
sampling 10% (42003447) splicing reads. 323900 splicing junctions. 199095 known splicing junctions. 124805 novel splicing junctions.
sampling 15% (63005171) splicing reads. 357801 splicing junctions. 204725 known splicing junctions. 153076 novel splicing junctions.
sampling 20% (84006895) splicing reads. 381724 splicing junctions. 208174 known splicing junctions. 173550 novel splicing junctions.
sampling 25% (105008619) splicing reads. 399405 splicing junctions. 210413 known splicing junctions. 188992 novel splicing junctions.
sampling 30% (126010343) splicing reads. 413301 splicing junctions. 212134 known splicing junctions. 201167 novel splicing junctions.
sampling 35% (147012067) splicing reads. 424596 splicing junctions. 213476 known splicing junctions. 211120 novel splicing junctions.
sampling 40% (168013791) splicing reads. 433628 splicing junctions. 214524 known splicing junctions. 219104 novel splicing junctions.
sampling 45% (189015515) splicing reads. 441124 splicing junctions. 215391 known splicing junctions. 225733 novel splicing junctions.
sampling 50% (210017239) splicing reads. 447601 splicing junctions. 216058 known splicing junctions. 231543 novel splicing junctions.
sampling 55% (231018962) splicing reads. 453001 splicing junctions. 216625 known splicing junctions. 236376 novel splicing junctions.
sampling 60% (252020686) splicing reads. 457569 splicing junctions. 217083 known splicing junctions. 240486 novel splicing junctions.
sampling 65% (273022410) splicing reads. 461395 splicing junctions. 217444 known splicing junctions. 243951 novel splicing junctions.
sampling 70% (294024134) splicing reads. 464726 splicing junctions. 217758 known splicing junctions. 246968 novel splicing junctions.
sampling 75% (315025858) splicing reads. 467589 splicing junctions. 218023 known splicing junctions. 249566 novel splicing junctions.
sampling 80% (336027582) splicing reads. 470016 splicing junctions. 218245 known splicing junctions. 251771 novel splicing junctions.
sampling 85% (357029306) splicing reads. 472027 splicing junctions. 218419 known splicing junctions. 253608 novel splicing junctions.
sampling 90% (378031030) splicing reads. 473742 splicing junctions. 218572 known splicing junctions. 255170 novel splicing junctions.
sampling 95% (399032754) splicing reads. 475189 splicing junctions. 218698 known splicing junctions. 256491 novel splicing junctions.
sampling 100% (420034478) splicing reads. 476309 splicing junctions. 218790 known splicing junctions. 257519 novel splicing junctions.