[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. 94036 splicing junctions. 89534 known splicing junctions. 4502 novel splicing junctions.
sampling 10% (1121740) splicing reads. 112899 splicing junctions. 104791 known splicing junctions. 8108 novel splicing junctions.
sampling 15% (1682611) splicing reads. 123586 splicing junctions. 112400 known splicing junctions. 11186 novel splicing junctions.
sampling 20% (2243481) splicing reads. 131390 splicing junctions. 117414 known splicing junctions. 13976 novel splicing junctions.
sampling 25% (2804352) splicing reads. 137593 splicing junctions. 121091 known splicing junctions. 16502 novel splicing junctions.
sampling 30% (3365222) splicing reads. 142727 splicing junctions. 123938 known splicing junctions. 18789 novel splicing junctions.
sampling 35% (3926092) splicing reads. 147184 splicing junctions. 126328 known splicing junctions. 20856 novel splicing junctions.
sampling 40% (4486963) splicing reads. 150991 splicing junctions. 128226 known splicing junctions. 22765 novel splicing junctions.
sampling 45% (5047833) splicing reads. 154340 splicing junctions. 129841 known splicing junctions. 24499 novel splicing junctions.
sampling 50% (5608704) splicing reads. 157381 splicing junctions. 131233 known splicing junctions. 26148 novel splicing junctions.
sampling 55% (6169574) splicing reads. 160105 splicing junctions. 132472 known splicing junctions. 27633 novel splicing junctions.
sampling 60% (6730444) splicing reads. 162638 splicing junctions. 133582 known splicing junctions. 29056 novel splicing junctions.
sampling 65% (7291315) splicing reads. 164887 splicing junctions. 134531 known splicing junctions. 30356 novel splicing junctions.
sampling 70% (7852185) splicing reads. 166906 splicing junctions. 135412 known splicing junctions. 31494 novel splicing junctions.
sampling 75% (8413056) splicing reads. 168739 splicing junctions. 136159 known splicing junctions. 32580 novel splicing junctions.
sampling 80% (8973926) splicing reads. 170458 splicing junctions. 136851 known splicing junctions. 33607 novel splicing junctions.
sampling 85% (9534796) splicing reads. 171984 splicing junctions. 137453 known splicing junctions. 34531 novel splicing junctions.
sampling 90% (10095667) splicing reads. 173358 splicing junctions. 138004 known splicing junctions. 35354 novel splicing junctions.
sampling 95% (10656537) splicing reads. 174632 splicing junctions. 138513 known splicing junctions. 36119 novel splicing junctions.
sampling 100% (11217408) splicing reads. 175815 splicing junctions. 139001 known splicing junctions. 36814 novel splicing junctions.