[W::hts_idx_load3] The index file is older than the data file: 659_cX2_T1_TRNA_1_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% (5664627) splicing reads. 187909 splicing junctions. 153769 known splicing junctions. 34140 novel splicing junctions.
sampling 10% (11329254) splicing reads. 225389 splicing junctions. 167255 known splicing junctions. 58134 novel splicing junctions.
sampling 15% (16993881) splicing reads. 252354 splicing junctions. 174767 known splicing junctions. 77587 novel splicing junctions.
sampling 20% (22658508) splicing reads. 274538 splicing junctions. 180003 known splicing junctions. 94535 novel splicing junctions.
sampling 25% (28323135) splicing reads. 293110 splicing junctions. 183890 known splicing junctions. 109220 novel splicing junctions.
sampling 30% (33987762) splicing reads. 309288 splicing junctions. 186961 known splicing junctions. 122327 novel splicing junctions.
sampling 35% (39652389) splicing reads. 323315 splicing junctions. 189508 known splicing junctions. 133807 novel splicing junctions.
sampling 40% (45317016) splicing reads. 335951 splicing junctions. 191629 known splicing junctions. 144322 novel splicing junctions.
sampling 45% (50981643) splicing reads. 347326 splicing junctions. 193436 known splicing junctions. 153890 novel splicing junctions.
sampling 50% (56646271) splicing reads. 357602 splicing junctions. 194997 known splicing junctions. 162605 novel splicing junctions.
sampling 55% (62310898) splicing reads. 366737 splicing junctions. 196299 known splicing junctions. 170438 novel splicing junctions.
sampling 60% (67975525) splicing reads. 375012 splicing junctions. 197487 known splicing junctions. 177525 novel splicing junctions.
sampling 65% (73640152) splicing reads. 382614 splicing junctions. 198496 known splicing junctions. 184118 novel splicing junctions.
sampling 70% (79304779) splicing reads. 389597 splicing junctions. 199424 known splicing junctions. 190173 novel splicing junctions.
sampling 75% (84969406) splicing reads. 395951 splicing junctions. 200263 known splicing junctions. 195688 novel splicing junctions.
sampling 80% (90634033) splicing reads. 401639 splicing junctions. 200998 known splicing junctions. 200641 novel splicing junctions.
sampling 85% (96298660) splicing reads. 406708 splicing junctions. 201618 known splicing junctions. 205090 novel splicing junctions.
sampling 90% (101963287) splicing reads. 411253 splicing junctions. 202138 known splicing junctions. 209115 novel splicing junctions.
sampling 95% (107627914) splicing reads. 415135 splicing junctions. 202618 known splicing junctions. 212517 novel splicing junctions.
sampling 100% (113292542) splicing reads. 418508 splicing junctions. 203000 known splicing junctions. 215508 novel splicing junctions.