[W::hts_idx_load3] The index file is older than the data file: 659_bNS-T1-TRNA-1_A23MVY2LT4_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% (18578026) splicing reads. 285931 splicing junctions. 194168 known splicing junctions. 91763 novel splicing junctions.
sampling 10% (37156052) splicing reads. 353142 splicing junctions. 206740 known splicing junctions. 146402 novel splicing junctions.
sampling 15% (55734079) splicing reads. 400910 splicing junctions. 213433 known splicing junctions. 187477 novel splicing junctions.
sampling 20% (74312105) splicing reads. 438072 splicing junctions. 217621 known splicing junctions. 220451 novel splicing junctions.
sampling 25% (92890131) splicing reads. 467884 splicing junctions. 220636 known splicing junctions. 247248 novel splicing junctions.
sampling 30% (111468158) splicing reads. 492855 splicing junctions. 222939 known splicing junctions. 269916 novel splicing junctions.
sampling 35% (130046184) splicing reads. 514028 splicing junctions. 224767 known splicing junctions. 289261 novel splicing junctions.
sampling 40% (148624210) splicing reads. 532234 splicing junctions. 226221 known splicing junctions. 306013 novel splicing junctions.
sampling 45% (167202237) splicing reads. 548104 splicing junctions. 227415 known splicing junctions. 320689 novel splicing junctions.
sampling 50% (185780263) splicing reads. 561962 splicing junctions. 228445 known splicing junctions. 333517 novel splicing junctions.
sampling 55% (204358289) splicing reads. 574182 splicing junctions. 229316 known splicing junctions. 344866 novel splicing junctions.
sampling 60% (222936316) splicing reads. 584626 splicing junctions. 230004 known splicing junctions. 354622 novel splicing junctions.
sampling 65% (241514342) splicing reads. 593803 splicing junctions. 230606 known splicing junctions. 363197 novel splicing junctions.
sampling 70% (260092368) splicing reads. 601894 splicing junctions. 231161 known splicing junctions. 370733 novel splicing junctions.
sampling 75% (278670395) splicing reads. 609098 splicing junctions. 231573 known splicing junctions. 377525 novel splicing junctions.
sampling 80% (297248421) splicing reads. 615203 splicing junctions. 231938 known splicing junctions. 383265 novel splicing junctions.
sampling 85% (315826447) splicing reads. 620627 splicing junctions. 232283 known splicing junctions. 388344 novel splicing junctions.
sampling 90% (334404474) splicing reads. 625192 splicing junctions. 232553 known splicing junctions. 392639 novel splicing junctions.
sampling 95% (352982500) splicing reads. 629075 splicing junctions. 232804 known splicing junctions. 396271 novel splicing junctions.
sampling 100% (371560527) splicing reads. 632216 splicing junctions. 233014 known splicing junctions. 399202 novel splicing junctions.