[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. 95494 splicing junctions. 90805 known splicing junctions. 4689 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114530 splicing junctions. 106057 known splicing junctions. 8473 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125385 splicing junctions. 113618 known splicing junctions. 11767 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133238 splicing junctions. 118588 known splicing junctions. 14650 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139565 splicing junctions. 122251 known splicing junctions. 17314 novel splicing junctions.
sampling 30% (3521914) splicing reads. 144855 splicing junctions. 125128 known splicing junctions. 19727 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149447 splicing junctions. 127552 known splicing junctions. 21895 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153458 splicing junctions. 129514 known splicing junctions. 23944 novel splicing junctions.
sampling 45% (5282871) splicing reads. 157126 splicing junctions. 131215 known splicing junctions. 25911 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160394 splicing junctions. 132687 known splicing junctions. 27707 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163266 splicing junctions. 133970 known splicing junctions. 29296 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165887 splicing junctions. 135045 known splicing junctions. 30842 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168192 splicing junctions. 136014 known splicing junctions. 32178 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170355 splicing junctions. 136906 known splicing junctions. 33449 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172375 splicing junctions. 137751 known splicing junctions. 34624 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174142 splicing junctions. 138457 known splicing junctions. 35685 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175714 splicing junctions. 139099 known splicing junctions. 36615 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177147 splicing junctions. 139620 known splicing junctions. 37527 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178526 splicing junctions. 140171 known splicing junctions. 38355 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.