[W::hts_idx_load3] The index file is older than the data file: rna_s1200_S21.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% (586985) splicing reads. 95606 splicing junctions. 90976 known splicing junctions. 4630 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114579 splicing junctions. 106092 known splicing junctions. 8487 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125449 splicing junctions. 113618 known splicing junctions. 11831 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133331 splicing junctions. 118611 known splicing junctions. 14720 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139726 splicing junctions. 122236 known splicing junctions. 17490 novel splicing junctions.
sampling 30% (3521914) splicing reads. 144932 splicing junctions. 125078 known splicing junctions. 19854 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149461 splicing junctions. 127402 known splicing junctions. 22059 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153417 splicing junctions. 129357 known splicing junctions. 24060 novel splicing junctions.
sampling 45% (5282871) splicing reads. 156973 splicing junctions. 130990 known splicing junctions. 25983 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160242 splicing junctions. 132491 known splicing junctions. 27751 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163224 splicing junctions. 133819 known splicing junctions. 29405 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165807 splicing junctions. 134922 known splicing junctions. 30885 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168192 splicing junctions. 135953 known splicing junctions. 32239 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170329 splicing junctions. 136842 known splicing junctions. 33487 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172314 splicing junctions. 137676 known splicing junctions. 34638 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174048 splicing junctions. 138406 known splicing junctions. 35642 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175700 splicing junctions. 139064 known splicing junctions. 36636 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177166 splicing junctions. 139647 known splicing junctions. 37519 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178476 splicing junctions. 140130 known splicing junctions. 38346 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.