[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. 95551 splicing junctions. 90882 known splicing junctions. 4669 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114512 splicing junctions. 106018 known splicing junctions. 8494 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125492 splicing junctions. 113602 known splicing junctions. 11890 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133394 splicing junctions. 118564 known splicing junctions. 14830 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139678 splicing junctions. 122219 known splicing junctions. 17459 novel splicing junctions.
sampling 30% (3521914) splicing reads. 145070 splicing junctions. 125122 known splicing junctions. 19948 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149596 splicing junctions. 127475 known splicing junctions. 22121 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153643 splicing junctions. 129479 known splicing junctions. 24164 novel splicing junctions.
sampling 45% (5282871) splicing reads. 157161 splicing junctions. 131116 known splicing junctions. 26045 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160299 splicing junctions. 132577 known splicing junctions. 27722 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163200 splicing junctions. 133892 known splicing junctions. 29308 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165822 splicing junctions. 135046 known splicing junctions. 30776 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168190 splicing junctions. 136023 known splicing junctions. 32167 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170331 splicing junctions. 136879 known splicing junctions. 33452 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172294 splicing junctions. 137691 known splicing junctions. 34603 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174089 splicing junctions. 138421 known splicing junctions. 35668 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175726 splicing junctions. 139065 known splicing junctions. 36661 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177154 splicing junctions. 139646 known splicing junctions. 37508 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178487 splicing junctions. 140136 known splicing junctions. 38351 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.