[W::hts_idx_load3] The index file is older than the data file: BreastNB_FFPE_L03_RNA_01_B23LG7FLT4_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% (2128980) splicing reads. 120296 splicing junctions. 112788 known splicing junctions. 7508 novel splicing junctions.
sampling 10% (4257960) splicing reads. 128563 splicing junctions. 119142 known splicing junctions. 9421 novel splicing junctions.
sampling 15% (6386940) splicing reads. 132089 splicing junctions. 121537 known splicing junctions. 10552 novel splicing junctions.
sampling 20% (8515921) splicing reads. 134243 splicing junctions. 122801 known splicing junctions. 11442 novel splicing junctions.
sampling 25% (10644901) splicing reads. 135822 splicing junctions. 123652 known splicing junctions. 12170 novel splicing junctions.
sampling 30% (12773881) splicing reads. 137004 splicing junctions. 124234 known splicing junctions. 12770 novel splicing junctions.
sampling 35% (14902862) splicing reads. 137973 splicing junctions. 124697 known splicing junctions. 13276 novel splicing junctions.
sampling 40% (17031842) splicing reads. 138771 splicing junctions. 125058 known splicing junctions. 13713 novel splicing junctions.
sampling 45% (19160822) splicing reads. 139436 splicing junctions. 125356 known splicing junctions. 14080 novel splicing junctions.
sampling 50% (21289803) splicing reads. 140015 splicing junctions. 125595 known splicing junctions. 14420 novel splicing junctions.
sampling 55% (23418783) splicing reads. 140493 splicing junctions. 125787 known splicing junctions. 14706 novel splicing junctions.
sampling 60% (25547763) splicing reads. 140901 splicing junctions. 125944 known splicing junctions. 14957 novel splicing junctions.
sampling 65% (27676743) splicing reads. 141251 splicing junctions. 126078 known splicing junctions. 15173 novel splicing junctions.
sampling 70% (29805724) splicing reads. 141585 splicing junctions. 126209 known splicing junctions. 15376 novel splicing junctions.
sampling 75% (31934704) splicing reads. 141839 splicing junctions. 126298 known splicing junctions. 15541 novel splicing junctions.
sampling 80% (34063684) splicing reads. 142035 splicing junctions. 126375 known splicing junctions. 15660 novel splicing junctions.
sampling 85% (36192665) splicing reads. 142186 splicing junctions. 126436 known splicing junctions. 15750 novel splicing junctions.
sampling 90% (38321645) splicing reads. 142297 splicing junctions. 126484 known splicing junctions. 15813 novel splicing junctions.
sampling 95% (40450625) splicing reads. 142357 splicing junctions. 126502 known splicing junctions. 15855 novel splicing junctions.
sampling 100% (42579606) splicing reads. 142401 splicing junctions. 126519 known splicing junctions. 15882 novel splicing junctions.