[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. 215962 splicing junctions. 165289 known splicing junctions. 50673 novel splicing junctions.
sampling 10% (21277215) splicing reads. 252352 splicing junctions. 176545 known splicing junctions. 75807 novel splicing junctions.
sampling 15% (31915823) splicing reads. 274454 splicing junctions. 182075 known splicing junctions. 92379 novel splicing junctions.
sampling 20% (42554431) splicing reads. 289476 splicing junctions. 185405 known splicing junctions. 104071 novel splicing junctions.
sampling 25% (53193039) splicing reads. 300897 splicing junctions. 187763 known splicing junctions. 113134 novel splicing junctions.
sampling 30% (63831647) splicing reads. 309506 splicing junctions. 189354 known splicing junctions. 120152 novel splicing junctions.
sampling 35% (74470254) splicing reads. 316447 splicing junctions. 190588 known splicing junctions. 125859 novel splicing junctions.
sampling 40% (85108862) splicing reads. 322070 splicing junctions. 191555 known splicing junctions. 130515 novel splicing junctions.
sampling 45% (95747470) splicing reads. 326714 splicing junctions. 192339 known splicing junctions. 134375 novel splicing junctions.
sampling 50% (106386078) splicing reads. 330560 splicing junctions. 192960 known splicing junctions. 137600 novel splicing junctions.
sampling 55% (117024686) splicing reads. 333798 splicing junctions. 193457 known splicing junctions. 140341 novel splicing junctions.
sampling 60% (127663294) splicing reads. 336540 splicing junctions. 193886 known splicing junctions. 142654 novel splicing junctions.
sampling 65% (138301902) splicing reads. 338871 splicing junctions. 194220 known splicing junctions. 144651 novel splicing junctions.
sampling 70% (148940509) splicing reads. 340815 splicing junctions. 194521 known splicing junctions. 146294 novel splicing junctions.
sampling 75% (159579117) splicing reads. 342303 splicing junctions. 194724 known splicing junctions. 147579 novel splicing junctions.
sampling 80% (170217725) splicing reads. 343611 splicing junctions. 194905 known splicing junctions. 148706 novel splicing junctions.
sampling 85% (180856333) splicing reads. 344604 splicing junctions. 195046 known splicing junctions. 149558 novel splicing junctions.
sampling 90% (191494941) splicing reads. 345393 splicing junctions. 195171 known splicing junctions. 150222 novel splicing junctions.
sampling 95% (202133549) splicing reads. 345991 splicing junctions. 195261 known splicing junctions. 150730 novel splicing junctions.
sampling 100% (212772157) splicing reads. 346348 splicing junctions. 195315 known splicing junctions. 151033 novel splicing junctions.