[W::hts_idx_load3] The index file is older than the data file: 659_beZ_T1_TRNA_2_B2372Y3LT4_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% (1251776) splicing reads. 141382 splicing junctions. 130860 known splicing junctions. 10522 novel splicing junctions.
sampling 10% (2503553) splicing reads. 165617 splicing junctions. 147491 known splicing junctions. 18126 novel splicing junctions.
sampling 15% (3755329) splicing reads. 179635 splicing junctions. 155483 known splicing junctions. 24152 novel splicing junctions.
sampling 20% (5007106) splicing reads. 189706 splicing junctions. 160603 known splicing junctions. 29103 novel splicing junctions.
sampling 25% (6258883) splicing reads. 197436 splicing junctions. 164121 known splicing junctions. 33315 novel splicing junctions.
sampling 30% (7510659) splicing reads. 203798 splicing junctions. 166899 known splicing junctions. 36899 novel splicing junctions.
sampling 35% (8762436) splicing reads. 209042 splicing junctions. 168985 known splicing junctions. 40057 novel splicing junctions.
sampling 40% (10014213) splicing reads. 213529 splicing junctions. 170753 known splicing junctions. 42776 novel splicing junctions.
sampling 45% (11265989) splicing reads. 217307 splicing junctions. 172170 known splicing junctions. 45137 novel splicing junctions.
sampling 50% (12517766) splicing reads. 220643 splicing junctions. 173390 known splicing junctions. 47253 novel splicing junctions.
sampling 55% (13769543) splicing reads. 223451 splicing junctions. 174379 known splicing junctions. 49072 novel splicing junctions.
sampling 60% (15021319) splicing reads. 225944 splicing junctions. 175240 known splicing junctions. 50704 novel splicing junctions.
sampling 65% (16273096) splicing reads. 228008 splicing junctions. 175939 known splicing junctions. 52069 novel splicing junctions.
sampling 70% (17524873) splicing reads. 229846 splicing junctions. 176528 known splicing junctions. 53318 novel splicing junctions.
sampling 75% (18776649) splicing reads. 231412 splicing junctions. 177000 known splicing junctions. 54412 novel splicing junctions.
sampling 80% (20028426) splicing reads. 232749 splicing junctions. 177412 known splicing junctions. 55337 novel splicing junctions.
sampling 85% (21280203) splicing reads. 233876 splicing junctions. 177763 known splicing junctions. 56113 novel splicing junctions.
sampling 90% (22531979) splicing reads. 234848 splicing junctions. 178098 known splicing junctions. 56750 novel splicing junctions.
sampling 95% (23783756) splicing reads. 235575 splicing junctions. 178333 known splicing junctions. 57242 novel splicing junctions.
sampling 100% (25035533) splicing reads. 236121 splicing junctions. 178529 known splicing junctions. 57592 novel splicing junctions.