[W::hts_idx_load3] The index file is older than the data file: 659_bCu-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% (10638607) splicing reads. 215775 splicing junctions. 165260 known splicing junctions. 50515 novel splicing junctions.
sampling 10% (21277215) splicing reads. 252261 splicing junctions. 176565 known splicing junctions. 75696 novel splicing junctions.
sampling 15% (31915823) splicing reads. 274139 splicing junctions. 182051 known splicing junctions. 92088 novel splicing junctions.
sampling 20% (42554431) splicing reads. 289347 splicing junctions. 185439 known splicing junctions. 103908 novel splicing junctions.
sampling 25% (53193039) splicing reads. 300646 splicing junctions. 187763 known splicing junctions. 112883 novel splicing junctions.
sampling 30% (63831647) splicing reads. 309545 splicing junctions. 189454 known splicing junctions. 120091 novel splicing junctions.
sampling 35% (74470254) splicing reads. 316386 splicing junctions. 190590 known splicing junctions. 125796 novel splicing junctions.
sampling 40% (85108862) splicing reads. 321991 splicing junctions. 191533 known splicing junctions. 130458 novel splicing junctions.
sampling 45% (95747470) splicing reads. 326654 splicing junctions. 192294 known splicing junctions. 134360 novel splicing junctions.
sampling 50% (106386078) splicing reads. 330404 splicing junctions. 192961 known splicing junctions. 137443 novel splicing junctions.
sampling 55% (117024686) splicing reads. 333696 splicing junctions. 193477 known splicing junctions. 140219 novel splicing junctions.
sampling 60% (127663294) splicing reads. 336395 splicing junctions. 193889 known splicing junctions. 142506 novel splicing junctions.
sampling 65% (138301902) splicing reads. 338726 splicing junctions. 194256 known splicing junctions. 144470 novel splicing junctions.
sampling 70% (148940509) splicing reads. 340664 splicing junctions. 194543 known splicing junctions. 146121 novel splicing junctions.
sampling 75% (159579117) splicing reads. 342231 splicing junctions. 194749 known splicing junctions. 147482 novel splicing junctions.
sampling 80% (170217725) splicing reads. 343563 splicing junctions. 194939 known splicing junctions. 148624 novel splicing junctions.
sampling 85% (180856333) splicing reads. 344568 splicing junctions. 195086 known splicing junctions. 149482 novel splicing junctions.
sampling 90% (191494941) splicing reads. 345397 splicing junctions. 195193 known splicing junctions. 150204 novel splicing junctions.
sampling 95% (202133549) splicing reads. 346004 splicing junctions. 195279 known splicing junctions. 150725 novel splicing junctions.
sampling 100% (212772157) splicing reads. 346348 splicing junctions. 195315 known splicing junctions. 151033 novel splicing junctions.