[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. 95560 splicing junctions. 90871 known splicing junctions. 4689 novel splicing junctions.
sampling 10% (1173971) splicing reads. 114574 splicing junctions. 106124 known splicing junctions. 8450 novel splicing junctions.
sampling 15% (1760957) splicing reads. 125536 splicing junctions. 113744 known splicing junctions. 11792 novel splicing junctions.
sampling 20% (2347942) splicing reads. 133487 splicing junctions. 118649 known splicing junctions. 14838 novel splicing junctions.
sampling 25% (2934928) splicing reads. 139792 splicing junctions. 122287 known splicing junctions. 17505 novel splicing junctions.
sampling 30% (3521914) splicing reads. 144984 splicing junctions. 125059 known splicing junctions. 19925 novel splicing junctions.
sampling 35% (4108899) splicing reads. 149557 splicing junctions. 127420 known splicing junctions. 22137 novel splicing junctions.
sampling 40% (4695885) splicing reads. 153570 splicing junctions. 129393 known splicing junctions. 24177 novel splicing junctions.
sampling 45% (5282871) splicing reads. 157040 splicing junctions. 131017 known splicing junctions. 26023 novel splicing junctions.
sampling 50% (5869857) splicing reads. 160317 splicing junctions. 132520 known splicing junctions. 27797 novel splicing junctions.
sampling 55% (6456842) splicing reads. 163151 splicing junctions. 133819 known splicing junctions. 29332 novel splicing junctions.
sampling 60% (7043828) splicing reads. 165695 splicing junctions. 134933 known splicing junctions. 30762 novel splicing junctions.
sampling 65% (7630814) splicing reads. 168152 splicing junctions. 135967 known splicing junctions. 32185 novel splicing junctions.
sampling 70% (8217799) splicing reads. 170225 splicing junctions. 136844 known splicing junctions. 33381 novel splicing junctions.
sampling 75% (8804785) splicing reads. 172190 splicing junctions. 137660 known splicing junctions. 34530 novel splicing junctions.
sampling 80% (9391771) splicing reads. 174030 splicing junctions. 138412 known splicing junctions. 35618 novel splicing junctions.
sampling 85% (9978756) splicing reads. 175665 splicing junctions. 139066 known splicing junctions. 36599 novel splicing junctions.
sampling 90% (10565742) splicing reads. 177174 splicing junctions. 139621 known splicing junctions. 37553 novel splicing junctions.
sampling 95% (11152728) splicing reads. 178507 splicing junctions. 140145 known splicing junctions. 38362 novel splicing junctions.
sampling 100% (11739714) splicing reads. 179686 splicing junctions. 140590 known splicing junctions. 39096 novel splicing junctions.