[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. 95617 splicing junctions. 90945 known splicing junctions. 4672 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114468 splicing junctions. 106041 known splicing junctions. 8427 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125404 splicing junctions. 113708 known splicing junctions. 11696 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133241 splicing junctions. 118631 known splicing junctions. 14610 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139508 splicing junctions. 122189 known splicing junctions. 17319 novel splicing junctions.
sampling 30% (3521914) splicing reads. 144894 splicing junctions. 125133 known splicing junctions. 19761 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149464 splicing junctions. 127474 known splicing junctions. 21990 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153404 splicing junctions. 129391 known splicing junctions. 24013 novel splicing junctions.
sampling 45% (5282871) splicing reads. 156979 splicing junctions. 131110 known splicing junctions. 25869 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160172 splicing junctions. 132583 known splicing junctions. 27589 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163095 splicing junctions. 133861 known splicing junctions. 29234 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165768 splicing junctions. 135017 known splicing junctions. 30751 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168144 splicing junctions. 136039 known splicing junctions. 32105 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170277 splicing junctions. 136877 known splicing junctions. 33400 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172269 splicing junctions. 137670 known splicing junctions. 34599 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174143 splicing junctions. 138424 known splicing junctions. 35719 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175779 splicing junctions. 139086 known splicing junctions. 36693 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177253 splicing junctions. 139702 known splicing junctions. 37551 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178501 splicing junctions. 140162 known splicing junctions. 38339 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.