[W::hts_idx_load3] The index file is older than the data file: 659_bCu-T1-TRNA-1_B23WHTKLT4_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% (2882053) splicing reads. 133425 splicing junctions. 120765 known splicing junctions. 12660 novel splicing junctions.
sampling 10% (5764106) splicing reads. 143350 splicing junctions. 127344 known splicing junctions. 16006 novel splicing junctions.
sampling 15% (8646159) splicing reads. 147236 splicing junctions. 129643 known splicing junctions. 17593 novel splicing junctions.
sampling 20% (11528212) splicing reads. 149401 splicing junctions. 130781 known splicing junctions. 18620 novel splicing junctions.
sampling 25% (14410265) splicing reads. 150971 splicing junctions. 131556 known splicing junctions. 19415 novel splicing junctions.
sampling 30% (17292318) splicing reads. 152140 splicing junctions. 132080 known splicing junctions. 20060 novel splicing junctions.
sampling 35% (20174371) splicing reads. 153033 splicing junctions. 132456 known splicing junctions. 20577 novel splicing junctions.
sampling 40% (23056424) splicing reads. 153815 splicing junctions. 132779 known splicing junctions. 21036 novel splicing junctions.
sampling 45% (25938477) splicing reads. 154443 splicing junctions. 133010 known splicing junctions. 21433 novel splicing junctions.
sampling 50% (28820531) splicing reads. 154983 splicing junctions. 133201 known splicing junctions. 21782 novel splicing junctions.
sampling 55% (31702584) splicing reads. 155435 splicing junctions. 133347 known splicing junctions. 22088 novel splicing junctions.
sampling 60% (34584637) splicing reads. 155822 splicing junctions. 133468 known splicing junctions. 22354 novel splicing junctions.
sampling 65% (37466690) splicing reads. 156207 splicing junctions. 133607 known splicing junctions. 22600 novel splicing junctions.
sampling 70% (40348743) splicing reads. 156485 splicing junctions. 133706 known splicing junctions. 22779 novel splicing junctions.
sampling 75% (43230796) splicing reads. 156724 splicing junctions. 133779 known splicing junctions. 22945 novel splicing junctions.
sampling 80% (46112849) splicing reads. 156954 splicing junctions. 133853 known splicing junctions. 23101 novel splicing junctions.
sampling 85% (48994902) splicing reads. 157143 splicing junctions. 133913 known splicing junctions. 23230 novel splicing junctions.
sampling 90% (51876955) splicing reads. 157287 splicing junctions. 133965 known splicing junctions. 23322 novel splicing junctions.
sampling 95% (54759008) splicing reads. 157384 splicing junctions. 133998 known splicing junctions. 23386 novel splicing junctions.
sampling 100% (57641062) splicing reads. 157431 splicing junctions. 134012 known splicing junctions. 23419 novel splicing junctions.