[W::hts_idx_load3] The index file is older than the data file: 659_bhK-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% (17912332) splicing reads. 248540 splicing junctions. 181613 known splicing junctions. 66927 novel splicing junctions.
sampling 10% (35824665) splicing reads. 304181 splicing junctions. 194922 known splicing junctions. 109259 novel splicing junctions.
sampling 15% (53736997) splicing reads. 344756 splicing junctions. 202344 known splicing junctions. 142412 novel splicing junctions.
sampling 20% (71649330) splicing reads. 377100 splicing junctions. 207251 known splicing junctions. 169849 novel splicing junctions.
sampling 25% (89561663) splicing reads. 404669 splicing junctions. 210955 known splicing junctions. 193714 novel splicing junctions.
sampling 30% (107473995) splicing reads. 428357 splicing junctions. 213856 known splicing junctions. 214501 novel splicing junctions.
sampling 35% (125386328) splicing reads. 449187 splicing junctions. 216130 known splicing junctions. 233057 novel splicing junctions.
sampling 40% (143298660) splicing reads. 467386 splicing junctions. 218004 known splicing junctions. 249382 novel splicing junctions.
sampling 45% (161210993) splicing reads. 483708 splicing junctions. 219630 known splicing junctions. 264078 novel splicing junctions.
sampling 50% (179123326) splicing reads. 498105 splicing junctions. 220990 known splicing junctions. 277115 novel splicing junctions.
sampling 55% (197035658) splicing reads. 510842 splicing junctions. 222191 known splicing junctions. 288651 novel splicing junctions.
sampling 60% (214947991) splicing reads. 522390 splicing junctions. 223185 known splicing junctions. 299205 novel splicing junctions.
sampling 65% (232860323) splicing reads. 532622 splicing junctions. 224061 known splicing junctions. 308561 novel splicing junctions.
sampling 70% (250772656) splicing reads. 541588 splicing junctions. 224806 known splicing junctions. 316782 novel splicing junctions.
sampling 75% (268684989) splicing reads. 549763 splicing junctions. 225481 known splicing junctions. 324282 novel splicing junctions.
sampling 80% (286597321) splicing reads. 556861 splicing junctions. 226012 known splicing junctions. 330849 novel splicing junctions.
sampling 85% (304509654) splicing reads. 563094 splicing junctions. 226497 known splicing junctions. 336597 novel splicing junctions.
sampling 90% (322421986) splicing reads. 568360 splicing junctions. 226917 known splicing junctions. 341443 novel splicing junctions.
sampling 95% (340334319) splicing reads. 572856 splicing junctions. 227275 known splicing junctions. 345581 novel splicing junctions.
sampling 100% (358246652) splicing reads. 576373 splicing junctions. 227574 known splicing junctions. 348799 novel splicing junctions.