[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. 95657 splicing junctions. 90969 known splicing junctions. 4688 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114585 splicing junctions. 106075 known splicing junctions. 8510 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125517 splicing junctions. 113677 known splicing junctions. 11840 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133377 splicing junctions. 118542 known splicing junctions. 14835 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139569 splicing junctions. 122157 known splicing junctions. 17412 novel splicing junctions.
sampling 30% (3521914) splicing reads. 145001 splicing junctions. 125135 known splicing junctions. 19866 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149504 splicing junctions. 127404 known splicing junctions. 22100 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153482 splicing junctions. 129353 known splicing junctions. 24129 novel splicing junctions.
sampling 45% (5282871) splicing reads. 157030 splicing junctions. 131058 known splicing junctions. 25972 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160156 splicing junctions. 132444 known splicing junctions. 27712 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163012 splicing junctions. 133715 known splicing junctions. 29297 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165595 splicing junctions. 134840 known splicing junctions. 30755 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168036 splicing junctions. 135890 known splicing junctions. 32146 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170184 splicing junctions. 136841 known splicing junctions. 33343 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172199 splicing junctions. 137673 known splicing junctions. 34526 novel splicing junctions.
sampling 80% (9391771) splicing reads. 173973 splicing junctions. 138413 known splicing junctions. 35560 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175615 splicing junctions. 139048 known splicing junctions. 36567 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177084 splicing junctions. 139645 known splicing junctions. 37439 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178488 splicing junctions. 140164 known splicing junctions. 38324 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.