[W::hts_idx_load3] The index file is older than the data file: 659_bNS-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% (6017549) splicing reads. 203914 splicing junctions. 168517 known splicing junctions. 35397 novel splicing junctions.
sampling 10% (12035099) splicing reads. 238366 splicing junctions. 181160 known splicing junctions. 57206 novel splicing junctions.
sampling 15% (18052648) splicing reads. 261007 splicing junctions. 187844 known splicing junctions. 73163 novel splicing junctions.
sampling 20% (24070198) splicing reads. 277630 splicing junctions. 192013 known splicing junctions. 85617 novel splicing junctions.
sampling 25% (30087747) splicing reads. 290465 splicing junctions. 194953 known splicing junctions. 95512 novel splicing junctions.
sampling 30% (36105297) splicing reads. 300728 splicing junctions. 197116 known splicing junctions. 103612 novel splicing junctions.
sampling 35% (42122846) splicing reads. 309262 splicing junctions. 198863 known splicing junctions. 110399 novel splicing junctions.
sampling 40% (48140396) splicing reads. 316446 splicing junctions. 200210 known splicing junctions. 116236 novel splicing junctions.
sampling 45% (54157945) splicing reads. 322606 splicing junctions. 201285 known splicing junctions. 121321 novel splicing junctions.
sampling 50% (60175495) splicing reads. 327742 splicing junctions. 202206 known splicing junctions. 125536 novel splicing junctions.
sampling 55% (66193045) splicing reads. 332374 splicing junctions. 203026 known splicing junctions. 129348 novel splicing junctions.
sampling 60% (72210594) splicing reads. 336155 splicing junctions. 203665 known splicing junctions. 132490 novel splicing junctions.
sampling 65% (78228144) splicing reads. 339561 splicing junctions. 204221 known splicing junctions. 135340 novel splicing junctions.
sampling 70% (84245693) splicing reads. 342444 splicing junctions. 204703 known splicing junctions. 137741 novel splicing junctions.
sampling 75% (90263243) splicing reads. 344978 splicing junctions. 205107 known splicing junctions. 139871 novel splicing junctions.
sampling 80% (96280792) splicing reads. 347095 splicing junctions. 205437 known splicing junctions. 141658 novel splicing junctions.
sampling 85% (102298342) splicing reads. 348926 splicing junctions. 205734 known splicing junctions. 143192 novel splicing junctions.
sampling 90% (108315891) splicing reads. 350425 splicing junctions. 205975 known splicing junctions. 144450 novel splicing junctions.
sampling 95% (114333441) splicing reads. 351663 splicing junctions. 206150 known splicing junctions. 145513 novel splicing junctions.
sampling 100% (120350991) splicing reads. 352644 splicing junctions. 206305 known splicing junctions. 146339 novel splicing junctions.