[W::hts_idx_load3] The index file is older than the data file: 659_b4x-T1-TRNA-1_B23MHV2LT4_1.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% (2525943) splicing reads. 147820 splicing junctions. 133786 known splicing junctions. 14034 novel splicing junctions.
sampling 10% (5051887) splicing reads. 161948 splicing junctions. 142515 known splicing junctions. 19433 novel splicing junctions.
sampling 15% (7577830) splicing reads. 168319 splicing junctions. 145986 known splicing junctions. 22333 novel splicing junctions.
sampling 20% (10103774) splicing reads. 172040 splicing junctions. 147845 known splicing junctions. 24195 novel splicing junctions.
sampling 25% (12629718) splicing reads. 174505 splicing junctions. 149000 known splicing junctions. 25505 novel splicing junctions.
sampling 30% (15155661) splicing reads. 176302 splicing junctions. 149796 known splicing junctions. 26506 novel splicing junctions.
sampling 35% (17681605) splicing reads. 177632 splicing junctions. 150327 known splicing junctions. 27305 novel splicing junctions.
sampling 40% (20207549) splicing reads. 178675 splicing junctions. 150718 known splicing junctions. 27957 novel splicing junctions.
sampling 45% (22733492) splicing reads. 179551 splicing junctions. 151047 known splicing junctions. 28504 novel splicing junctions.
sampling 50% (25259436) splicing reads. 180321 splicing junctions. 151299 known splicing junctions. 29022 novel splicing junctions.
sampling 55% (27785380) splicing reads. 180930 splicing junctions. 151530 known splicing junctions. 29400 novel splicing junctions.
sampling 60% (30311323) splicing reads. 181431 splicing junctions. 151726 known splicing junctions. 29705 novel splicing junctions.
sampling 65% (32837267) splicing reads. 181855 splicing junctions. 151881 known splicing junctions. 29974 novel splicing junctions.
sampling 70% (35363211) splicing reads. 182212 splicing junctions. 151993 known splicing junctions. 30219 novel splicing junctions.
sampling 75% (37889154) splicing reads. 182518 splicing junctions. 152101 known splicing junctions. 30417 novel splicing junctions.
sampling 80% (40415098) splicing reads. 182737 splicing junctions. 152174 known splicing junctions. 30563 novel splicing junctions.
sampling 85% (42941042) splicing reads. 182944 splicing junctions. 152237 known splicing junctions. 30707 novel splicing junctions.
sampling 90% (45466985) splicing reads. 183078 splicing junctions. 152281 known splicing junctions. 30797 novel splicing junctions.
sampling 95% (47992929) splicing reads. 183179 splicing junctions. 152317 known splicing junctions. 30862 novel splicing junctions.
sampling 100% (50518873) splicing reads. 183237 splicing junctions. 152332 known splicing junctions. 30905 novel splicing junctions.