[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. 95665 splicing junctions. 90963 known splicing junctions. 4702 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114537 splicing junctions. 106023 known splicing junctions. 8514 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125523 splicing junctions. 113677 known splicing junctions. 11846 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133536 splicing junctions. 118708 known splicing junctions. 14828 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139790 splicing junctions. 122353 known splicing junctions. 17437 novel splicing junctions.
sampling 30% (3521914) splicing reads. 145087 splicing junctions. 125205 known splicing junctions. 19882 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149620 splicing junctions. 127472 known splicing junctions. 22148 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153511 splicing junctions. 129401 known splicing junctions. 24110 novel splicing junctions.
sampling 45% (5282871) splicing reads. 157075 splicing junctions. 131073 known splicing junctions. 26002 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160307 splicing junctions. 132543 known splicing junctions. 27764 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163177 splicing junctions. 133826 known splicing junctions. 29351 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165803 splicing junctions. 134984 known splicing junctions. 30819 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168142 splicing junctions. 135968 known splicing junctions. 32174 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170330 splicing junctions. 136900 known splicing junctions. 33430 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172280 splicing junctions. 137695 known splicing junctions. 34585 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174127 splicing junctions. 138428 known splicing junctions. 35699 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175724 splicing junctions. 139109 known splicing junctions. 36615 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177257 splicing junctions. 139713 known splicing junctions. 37544 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178520 splicing junctions. 140197 known splicing junctions. 38323 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.