[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% (560912) splicing reads. 94307 splicing junctions. 89796 known splicing junctions. 4511 novel splicing junctions.
sampling 10% (1121824) splicing reads. 112890 splicing junctions. 104896 known splicing junctions. 7994 novel splicing junctions.
sampling 15% (1682736) splicing reads. 123640 splicing junctions. 112544 known splicing junctions. 11096 novel splicing junctions.
sampling 20% (2243649) splicing reads. 131355 splicing junctions. 117439 known splicing junctions. 13916 novel splicing junctions.
sampling 25% (2804561) splicing reads. 137494 splicing junctions. 121019 known splicing junctions. 16475 novel splicing junctions.
sampling 30% (3365473) splicing reads. 142641 splicing junctions. 123849 known splicing junctions. 18792 novel splicing junctions.
sampling 35% (3926385) splicing reads. 147136 splicing junctions. 126216 known splicing junctions. 20920 novel splicing junctions.
sampling 40% (4487298) splicing reads. 151109 splicing junctions. 128162 known splicing junctions. 22947 novel splicing junctions.
sampling 45% (5048210) splicing reads. 154493 splicing junctions. 129856 known splicing junctions. 24637 novel splicing junctions.
sampling 50% (5609122) splicing reads. 157577 splicing junctions. 131285 known splicing junctions. 26292 novel splicing junctions.
sampling 55% (6170034) splicing reads. 160329 splicing junctions. 132541 known splicing junctions. 27788 novel splicing junctions.
sampling 60% (6730947) splicing reads. 162841 splicing junctions. 133656 known splicing junctions. 29185 novel splicing junctions.
sampling 65% (7291859) splicing reads. 165136 splicing junctions. 134621 known splicing junctions. 30515 novel splicing junctions.
sampling 70% (7852771) splicing reads. 167245 splicing junctions. 135478 known splicing junctions. 31767 novel splicing junctions.
sampling 75% (8413683) splicing reads. 169067 splicing junctions. 136220 known splicing junctions. 32847 novel splicing junctions.
sampling 80% (8974596) splicing reads. 170813 splicing junctions. 136910 known splicing junctions. 33903 novel splicing junctions.
sampling 85% (9535508) splicing reads. 172382 splicing junctions. 137573 known splicing junctions. 34809 novel splicing junctions.
sampling 90% (10096420) splicing reads. 173829 splicing junctions. 138118 known splicing junctions. 35711 novel splicing junctions.
sampling 95% (10657332) splicing reads. 175055 splicing junctions. 138625 known splicing junctions. 36430 novel splicing junctions.
sampling 100% (11218245) splicing reads. 176197 splicing junctions. 139062 known splicing junctions. 37135 novel splicing junctions.