[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. 90985 known splicing junctions. 4621 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114622 splicing junctions. 106006 known splicing junctions. 8616 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125531 splicing junctions. 113662 known splicing junctions. 11869 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133502 splicing junctions. 118744 known splicing junctions. 14758 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139755 splicing junctions. 122315 known splicing junctions. 17440 novel splicing junctions.
sampling 30% (3521914) splicing reads. 145058 splicing junctions. 125223 known splicing junctions. 19835 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149601 splicing junctions. 127486 known splicing junctions. 22115 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153603 splicing junctions. 129475 known splicing junctions. 24128 novel splicing junctions.
sampling 45% (5282871) splicing reads. 157211 splicing junctions. 131211 known splicing junctions. 26000 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160397 splicing junctions. 132606 known splicing junctions. 27791 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163308 splicing junctions. 133901 known splicing junctions. 29407 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165895 splicing junctions. 135035 known splicing junctions. 30860 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168237 splicing junctions. 136047 known splicing junctions. 32190 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170432 splicing junctions. 136919 known splicing junctions. 33513 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172417 splicing junctions. 137727 known splicing junctions. 34690 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174144 splicing junctions. 138422 known splicing junctions. 35722 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175739 splicing junctions. 139067 known splicing junctions. 36672 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177244 splicing junctions. 139672 known splicing junctions. 37572 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178549 splicing junctions. 140162 known splicing junctions. 38387 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.