[W::hts_idx_load3] The index file is older than the data file: rna_s1221_S42.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% (560870) splicing reads. 94093 splicing junctions. 89639 known splicing junctions. 4454 novel splicing junctions.
sampling 10% (1121740) splicing reads. 112778 splicing junctions. 104834 known splicing junctions. 7944 novel splicing junctions.
sampling 15% (1682611) splicing reads. 123506 splicing junctions. 112434 known splicing junctions. 11072 novel splicing junctions.
sampling 20% (2243481) splicing reads. 131251 splicing junctions. 117393 known splicing junctions. 13858 novel splicing junctions.
sampling 25% (2804352) splicing reads. 137294 splicing junctions. 121004 known splicing junctions. 16290 novel splicing junctions.
sampling 30% (3365222) splicing reads. 142433 splicing junctions. 123929 known splicing junctions. 18504 novel splicing junctions.
sampling 35% (3926092) splicing reads. 146939 splicing junctions. 126301 known splicing junctions. 20638 novel splicing junctions.
sampling 40% (4486963) splicing reads. 150765 splicing junctions. 128189 known splicing junctions. 22576 novel splicing junctions.
sampling 45% (5047833) splicing reads. 154202 splicing junctions. 129881 known splicing junctions. 24321 novel splicing junctions.
sampling 50% (5608704) splicing reads. 157297 splicing junctions. 131322 known splicing junctions. 25975 novel splicing junctions.
sampling 55% (6169574) splicing reads. 160084 splicing junctions. 132609 known splicing junctions. 27475 novel splicing junctions.
sampling 60% (6730444) splicing reads. 162598 splicing junctions. 133679 known splicing junctions. 28919 novel splicing junctions.
sampling 65% (7291315) splicing reads. 164866 splicing junctions. 134616 known splicing junctions. 30250 novel splicing junctions.
sampling 70% (7852185) splicing reads. 166914 splicing junctions. 135446 known splicing junctions. 31468 novel splicing junctions.
sampling 75% (8413056) splicing reads. 168782 splicing junctions. 136236 known splicing junctions. 32546 novel splicing junctions.
sampling 80% (8973926) splicing reads. 170457 splicing junctions. 136907 known splicing junctions. 33550 novel splicing junctions.
sampling 85% (9534796) splicing reads. 172067 splicing junctions. 137546 known splicing junctions. 34521 novel splicing junctions.
sampling 90% (10095667) splicing reads. 173488 splicing junctions. 138132 known splicing junctions. 35356 novel splicing junctions.
sampling 95% (10656537) splicing reads. 174765 splicing junctions. 138604 known splicing junctions. 36161 novel splicing junctions.
sampling 100% (11217408) splicing reads. 175815 splicing junctions. 139001 known splicing junctions. 36814 novel splicing junctions.