Supplemental File 3. Read alignments for the 39 newly identified endo-siRNAs. >chr1_155723523_155723773_-_SINE_IR_siRNA CAUUUAAAAUCCUUGGAGCAGGGAGGCAGAGGUUGCAGUGAGCCAUGAUGAUACCACUGAGCUCCAGCCUGGGUGACAGAGUGAGACCGUGUUUAAAAAAAAAAAAAAUCAAAUCCUUGGAGGAAUAGCUGGGCAACAGGGCACUCAGGAGGCUCAGGUGGGAGGAUCACUUGAGCCCAGGAGUCUGAGGCUAUAGUGUACCACCAUGGUCAUGCCUGUGUAAACAGCCACUGCACUCCAGCCUGGGCAAG ...........((..(.((..((((((((.(((((((((((.(((((.((.((.((((((((..((((((((((....((((((..((.........................(((.....))).((.((((((.....((...)).....)))))).))...)).))))))..)))))))...)))..))).))))))).)).))))))))...)))......))))).)))).)))).)))..)).... (-83.67) ...................AGGGAGGCAGAGGTTGCA...................................................................................................................................................................................................................... 1 18 1955 ...................AGGGAGGCAGAGGTTGCAGTGA.................................................................................................................................................................................................................. 1 22 1633 ....................GGGAGGCAGAGGTTGCAG..................................................................................................................................................................................................................... 2 18 56760 ....................GGGAGGCAGAGGTTGCAGT.................................................................................................................................................................................................................... 5 19 54525 ....................GGGAGGCAGAGGTTGCAGTGA.................................................................................................................................................................................................................. 6 21 50451 ....................GGGAGGCAGAGGTTGCAGTGAGC................................................................................................................................................................................................................ 7 23 45065 .....................GGAGGCAGAGGTTGCAGT.................................................................................................................................................................................................................... 1 18 92665 .....................GGAGGCAGAGGTTGCAGTG................................................................................................................................................................................................................... 2 19 87486 .....................GGAGGCAGAGGTTGCAGTGA.................................................................................................................................................................................................................. 1 20 85635 .....................GGAGGCAGAGGTTGCAGTGAGC................................................................................................................................................................................................................ 6 22 76448 .....................GGAGGCAGAGGTTGCAGTGAGCC............................................................................................................................................................................................................... 1 23 50070 .....................GGAGGCAGAGGTTGCAGTGAGCCA.............................................................................................................................................................................................................. 1 24 23357 ......................GAGGCAGAGGTTGCAGTG................................................................................................................................................................................................................... 1 18 93621 ......................GAGGCAGAGGTTGCAGTGA.................................................................................................................................................................................................................. 1 19 91636 ......................GAGGCAGAGGTTGCAGTGAG................................................................................................................................................................................................................. 3 20 86646 .......................AGGCAGAGGTTGCAGTGAGC................................................................................................................................................................................................................ 2 20 87580 .......................AGGCAGAGGTTGCAGTGAGCC............................................................................................................................................................................................................... 2 21 57277 ........................GGCAGAGGTTGCAGTGAG................................................................................................................................................................................................................. 2 18 96589 ........................GGCAGAGGTTGCAGTGAGCC............................................................................................................................................................................................................... 1 20 59555 ........................GGCAGAGGTTGCAGTGAGCCA.............................................................................................................................................................................................................. 2 21 28001 .........................GCAGAGGTTGCAGTGAGC................................................................................................................................................................................................................ 1 18 97955 ..........................CAGAGGTTGCAGTGAGCC............................................................................................................................................................................................................... 3 18 69176 ..........................CAGAGGTTGCAGTGAGCCA.............................................................................................................................................................................................................. 2 19 32542 ............................GAGGTTGCAGTGAGCCATGA........................................................................................................................................................................................................... 1 20 1493 ......................................TGAGCCATGATGATACCACTGAGC............................................................................................................................................................................................. 1 24 1 ......................................TGAGCCATGATGATACCACTGAGCT............................................................................................................................................................................................ 2 25 1 ......................................TGAGCCATGATGATACCACTGAGCTC........................................................................................................................................................................................... 3 26 1 ......................................TGAGCCATGATGATACCACTGAGCTCC.......................................................................................................................................................................................... 24 27 1 ......................................TGAGCCATGATGATACCACTGAGCTCCA......................................................................................................................................................................................... 1 28 1 .......................................GAGCCATGATGATACCAC.................................................................................................................................................................................................. 1 18 9 .......................................GAGCCATGATGATACCACT................................................................................................................................................................................................. 1 19 8 .......................................GAGCCATGATGATACCACTGAG.............................................................................................................................................................................................. 4 22 1 .......................................GAGCCATGATGATACCACTGAGC............................................................................................................................................................................................. 2122 23 1 .......................................GAGCCATGATGATACCACTGAGCT............................................................................................................................................................................................ 179 24 1 .......................................GAGCCATGATGATACCACTGAGCTC........................................................................................................................................................................................... 31 25 1 .......................................GAGCCATGATGATACCACTGAGCTCC.......................................................................................................................................................................................... 179 26 1 .......................................GAGCCATGATGATACCACTGAGCTCCA......................................................................................................................................................................................... 1 27 1 .......................................GAGCCATGATGATACCACTGAGCTCCAG........................................................................................................................................................................................ 1 28 1 ........................................AGCCATGATGATACCACTGAGC............................................................................................................................................................................................. 207 22 1 ........................................AGCCATGATGATACCACTGAGCT............................................................................................................................................................................................ 3 23 1 ........................................AGCCATGATGATACCACTGAGCTC........................................................................................................................................................................................... 4 24 1 .........................................GCCATGATGATACCACTGAGC............................................................................................................................................................................................. 3 21 1 ..........................................CCATGATGATACCACTGAGCTCC.......................................................................................................................................................................................... 1 23 1 ...........................................CATGATGATACCACTGAGC............................................................................................................................................................................................. 18 19 1 ...........................................CATGATGATACCACTGAGCT............................................................................................................................................................................................ 5 20 1 ...........................................CATGATGATACCACTGAGCTCC.......................................................................................................................................................................................... 1 22 1 ............................................ATGATGATACCACTGAGCTCC.......................................................................................................................................................................................... 2 21 1 ............................................ATGATGATACCACTGAGCTCCAGCCTG.................................................................................................................................................................................... 1 27 1 ............................................ATGATGATACCACTGAGCTCCAGCCTGG................................................................................................................................................................................... 1 28 1 .............................................TGATGATACCACTGAGCTCC.......................................................................................................................................................................................... 2 20 1 ..............................................GATGATACCACTGAGCTCC.......................................................................................................................................................................................... 1 19 1 ...............................................ATGATACCACTGAGCTCC.......................................................................................................................................................................................... 2 18 1 ........................................................CTGAGCTCCAGCCTGGGTGACAGAGTGAG...................................................................................................................................................................... 1 29 16 .............................................................CTCCAGCCTGGGTGACAG............................................................................................................................................................................ 5 18 108825 .............................................................CTCCAGCCTGGGTGACAGA........................................................................................................................................................................... 17 19 101335 .............................................................CTCCAGCCTGGGTGACAGAG.......................................................................................................................................................................... 17 20 92572 .............................................................CTCCAGCCTGGGTGACAGAGT......................................................................................................................................................................... 5 21 34482 .............................................................CTCCAGCCTGGGTGACAGAGTG........................................................................................................................................................................ 1 22 30946 .............................................................CTCCAGCCTGGGTGACAGAGTGA....................................................................................................................................................................... 2 23 30133 .............................................................CTCCAGCCTGGGTGACAGAGTGAG...................................................................................................................................................................... 2 24 27680 .............................................................CTCCAGCCTGGGTGACAGAGTGAGA..................................................................................................................................................................... 2 25 26485 .............................................................CTCCAGCCTGGGTGACAGAGTGAGAC.................................................................................................................................................................... 2 26 23643 .............................................................CTCCAGCCTGGGTGACAGAGTGAGACC................................................................................................................................................................... 1 27 5429 ..............................................................TCCAGCCTGGGTGACAGA........................................................................................................................................................................... 6 18 109205 ..............................................................TCCAGCCTGGGTGACAGAG.......................................................................................................................................................................... 6 19 99637 ..............................................................TCCAGCCTGGGTGACAGAGT......................................................................................................................................................................... 1 20 37261 ..............................................................TCCAGCCTGGGTGACAGAGTGAG...................................................................................................................................................................... 1 23 29883 ..............................................................TCCAGCCTGGGTGACAGAGTGAGA..................................................................................................................................................................... 2 24 28600 ...............................................................CCAGCCTGGGTGACAGAG.......................................................................................................................................................................... 17 18 103132 ...............................................................CCAGCCTGGGTGACAGAGT......................................................................................................................................................................... 5 19 38730 ...............................................................CCAGCCTGGGTGACAGAGTG........................................................................................................................................................................ 2 20 34697 ...............................................................CCAGCCTGGGTGACAGAGTGA....................................................................................................................................................................... 1 21 33775 ...............................................................CCAGCCTGGGTGACAGAGTGAGA..................................................................................................................................................................... 5 23 29709 ...............................................................CCAGCCTGGGTGACAGAGTGAGAC.................................................................................................................................................................... 2 24 26438 ...............................................................CCAGCCTGGGTGACAGAGTGAGACC................................................................................................................................................................... 1 25 6371 ................................................................CAGCCTGGGTGACAGAGT......................................................................................................................................................................... 4 18 42058 ................................................................CAGCCTGGGTGACAGAGTG........................................................................................................................................................................ 1 19 37652 ................................................................CAGCCTGGGTGACAGAGTGA....................................................................................................................................................................... 1 20 36660 ................................................................CAGCCTGGGTGACAGAGTGAGA..................................................................................................................................................................... 5 22 32253 ................................................................CAGCCTGGGTGACAGAGTGAGAC.................................................................................................................................................................... 5 23 28666 .................................................................AGCCTGGGTGACAGAGTGAGA..................................................................................................................................................................... 1 21 35082 ..................................................................GCCTGGGTGACAGAGTGAG...................................................................................................................................................................... 1 19 37759 ..................................................................GCCTGGGTGACAGAGTGAGA..................................................................................................................................................................... 1 20 36100 ..................................................................GCCTGGGTGACAGAGTGAGAC.................................................................................................................................................................... 1 21 32010 ...................................................................CCTGGGTGACAGAGTGAG...................................................................................................................................................................... 2 18 40533 ...................................................................CCTGGGTGACAGAGTGAGA..................................................................................................................................................................... 4 19 38732 ....................................................................CTGGGTGACAGAGTGAGA..................................................................................................................................................................... 6 18 42080 ....................................................................CTGGGTGACAGAGTGAGAC.................................................................................................................................................................... 3 19 37182 ....................................................................CTGGGTGACAGAGTGAGACC................................................................................................................................................................... 3 20 10297 .....................................................................TGGGTGACAGAGTGAGAC.................................................................................................................................................................... 2 18 39668 ......................................................................GGGTGACAGAGTGAGACC................................................................................................................................................................... 1 18 11672 ..........................................................................................GTTTAAAAAAAAAAAAAA............................................................................................................................................... 1 18 2716 .....................................................................................................................................................AGGCTCAGGTGGGAGGAT.................................................................................... 1 18 465 ...........................................................................................................................................................AGGTGGGAGGATCACTTGAGCC.......................................................................... 1 22 9962 ...........................................................................................................................................................AGGTGGGAGGATCACTTGAGCCCAGGA..................................................................... 1 27 4475 ............................................................................................................................................................GGTGGGAGGATCACTTGAGCCCAGGAG.................................................................... 1 27 4027 .............................................................................................................................................................GTGGGAGGATCACTTGAG............................................................................ 1 18 19539 .............................................................................................................................................................GTGGGAGGATCACTTGAGC........................................................................... 3 19 14057 .............................................................................................................................................................GTGGGAGGATCACTTGAGCCC......................................................................... 1 21 8230 ..............................................................................................................................................................TGGGAGGATCACTTGAGC........................................................................... 1 18 16465 ..............................................................................................................................................................TGGGAGGATCACTTGAGCC.......................................................................... 3 19 14300 ..............................................................................................................................................................TGGGAGGATCACTTGAGCCC......................................................................... 2 20 9683 ..............................................................................................................................................................TGGGAGGATCACTTGAGCCCAG....................................................................... 1 22 7805 ..............................................................................................................................................................TGGGAGGATCACTTGAGCCCAGG...................................................................... 3 23 6960 ..............................................................................................................................................................TGGGAGGATCACTTGAGCCCAGGAG.................................................................... 2 25 5544 ...............................................................................................................................................................GGGAGGATCACTTGAGCC.......................................................................... 3 18 16930 ...............................................................................................................................................................GGGAGGATCACTTGAGCCC......................................................................... 2 19 11695 ...............................................................................................................................................................GGGAGGATCACTTGAGCCCAGGAG.................................................................... 1 24 6802 ................................................................................................................................................................GGAGGATCACTTGAGCCCAG....................................................................... 2 20 17392 ................................................................................................................................................................GGAGGATCACTTGAGCCCAGGA..................................................................... 1 22 14572 ................................................................................................................................................................GGAGGATCACTTGAGCCCAGGAG.................................................................... 1 23 12556 ................................................................................................................................................................GGAGGATCACTTGAGCCCAGGAGT................................................................... 1 24 8138 .................................................................................................................................................................GAGGATCACTTGAGCCCAG....................................................................... 1 19 19780 .................................................................................................................................................................GAGGATCACTTGAGCCCAGG...................................................................... 5 20 17623 .................................................................................................................................................................GAGGATCACTTGAGCCCAGGAG.................................................................... 6 22 14243 .................................................................................................................................................................GAGGATCACTTGAGCCCAGGAGT................................................................... 1 23 9293 ..................................................................................................................................................................AGGATCACTTGAGCCCAG....................................................................... 2 18 22169 ..................................................................................................................................................................AGGATCACTTGAGCCCAGG...................................................................... 1 19 19707 ..................................................................................................................................................................AGGATCACTTGAGCCCAGGA..................................................................... 1 20 18485 ..................................................................................................................................................................AGGATCACTTGAGCCCAGGAG.................................................................... 3 21 15927 ..................................................................................................................................................................AGGATCACTTGAGCCCAGGAGT................................................................... 1 22 10411 ....................................................................................................................................................................GATCACTTGAGCCCAGGA..................................................................... 3 18 26280 ....................................................................................................................................................................GATCACTTGAGCCCAGGAG.................................................................... 4 19 22817 ....................................................................................................................................................................GATCACTTGAGCCCAGGAGT................................................................... 2 20 16196 .....................................................................................................................................................................ATCACTTGAGCCCAGGAG.................................................................... 2 18 26911 .....................................................................................................................................................................ATCACTTGAGCCCAGGAGT................................................................... 2 19 18326 ......................................................................................................................................................................TCACTTGAGCCCAGGAGT................................................................... 4 18 19384 .........................................................................................................................................................................CTTGAGCCCAGGAGTCTGAGG............................................................. 1 21 213 ........................................................................................................................................................................................................................TGTGTAAACAGCCACTGCACTCCA........... 1 24 1 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCC........ 46 18 8115 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCCT....... 25 19 7831 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCCTG...... 34 20 7271 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCCTGG..... 13 21 6749 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCCTGGG.... 8 22 5919 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCCTGGGC... 28 23 3391 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCCTGGGCA.. 7 24 1967 .................................................................................................................................................................................................................................AGCCACTGCACTCCAGCCTGGGCAA. 1 25 1871 ..................................................................................................................................................................................................................................GCCACTGCACTCCAGCCT....... 28 18 206225 ..................................................................................................................................................................................................................................GCCACTGCACTCCAGCCTG...... 26 19 193697 ..................................................................................................................................................................................................................................GCCACTGCACTCCAGCCTGG..... 11 20 182431 ..................................................................................................................................................................................................................................GCCACTGCACTCCAGCCTGGG.... 18 21 160319 ..................................................................................................................................................................................................................................GCCACTGCACTCCAGCCTGGGC... 33 22 94106 ..................................................................................................................................................................................................................................GCCACTGCACTCCAGCCTGGGCA.. 7 23 44445 ...................................................................................................................................................................................................................................CCACTGCACTCCAGCCTG...... 58 18 289828 ...................................................................................................................................................................................................................................CCACTGCACTCCAGCCTGG..... 71 19 271745 ...................................................................................................................................................................................................................................CCACTGCACTCCAGCCTGGG.... 65 20 238431 ...................................................................................................................................................................................................................................CCACTGCACTCCAGCCTGGGC... 94 21 136591 ...................................................................................................................................................................................................................................CCACTGCACTCCAGCCTGGGCA.. 3 22 68514 ...................................................................................................................................................................................................................................CCACTGCACTCCAGCCTGGGCAA. 2 23 64374 ....................................................................................................................................................................................................................................CACTGCACTCCAGCCTGG..... 57 18 290607 ....................................................................................................................................................................................................................................CACTGCACTCCAGCCTGGG.... 42 19 254828 ....................................................................................................................................................................................................................................CACTGCACTCCAGCCTGGGC... 115 20 145033 ....................................................................................................................................................................................................................................CACTGCACTCCAGCCTGGGCA.. 27 21 73420 ....................................................................................................................................................................................................................................CACTGCACTCCAGCCTGGGCAA. 6 22 69025 .....................................................................................................................................................................................................................................ACTGCACTCCAGCCTGGG.... 21 18 265984 .....................................................................................................................................................................................................................................ACTGCACTCCAGCCTGGGC... 50 19 150880 .....................................................................................................................................................................................................................................ACTGCACTCCAGCCTGGGCA.. 15 20 76896 .....................................................................................................................................................................................................................................ACTGCACTCCAGCCTGGGCAA. 4 21 72295 ......................................................................................................................................................................................................................................CTGCACTCCAGCCTGGGC... 66 18 156997 ......................................................................................................................................................................................................................................CTGCACTCCAGCCTGGGCA.. 16 19 80286 ......................................................................................................................................................................................................................................CTGCACTCCAGCCTGGGCAA. 5 20 75483 .......................................................................................................................................................................................................................................TGCACTCCAGCCTGGGCA.. 19 18 124522 .......................................................................................................................................................................................................................................TGCACTCCAGCCTGGGCAA. 6 19 118177 ........................................................................................................................................................................................................................................GCACTCCAGCCTGGGCAA. 2 18 122614 negative ..................GTCCCTCCGTCTCCAACGTCA.................................................................................................................................................................................................................... 1 21 1568 ...................TCCCTCCGTCTCCAACGTCACT.................................................................................................................................................................................................................. 1 22 1633 ...................TCCCTCCGTCTCCAACGTC..................................................................................................................................................................................................................... 1 19 1859 ....................CCCTCCGTCTCCAACGTCACTCG................................................................................................................................................................................................................ 1 23 45065 ....................CCCTCCGTCTCCAACGTCACT.................................................................................................................................................................................................................. 2 21 50451 ....................CCCTCCGTCTCCAACGTCACTCGGT.............................................................................................................................................................................................................. 2 25 13512 ....................CCCTCCGTCTCCAACGTCA.................................................................................................................................................................................................................... 3 19 54525 ....................CCCTCCGTCTCCAACGTCAC................................................................................................................................................................................................................... 1 20 51551 ....................CCCTCCGTCTCCAACGTCACTC................................................................................................................................................................................................................. 7 22 47718 ....................CCCTCCGTCTCCAACGTC..................................................................................................................................................................................................................... 2 18 56760 .....................CCTCCGTCTCCAACGTCACTCG................................................................................................................................................................................................................ 10 22 76448 .....................CCTCCGTCTCCAACGTCACT.................................................................................................................................................................................................................. 4 20 85635 .....................CCTCCGTCTCCAACGTCACTCGGT.............................................................................................................................................................................................................. 2 24 23357 .....................CCTCCGTCTCCAACGTCA.................................................................................................................................................................................................................... 5 18 92665 .....................CCTCCGTCTCCAACGTCAC................................................................................................................................................................................................................... 9 19 87486 .....................CCTCCGTCTCCAACGTCACTC................................................................................................................................................................................................................. 10 21 81019 ......................CTCCGTCTCCAACGTCACTCG................................................................................................................................................................................................................ 2 21 81747 ......................CTCCGTCTCCAACGTCACTCGG............................................................................................................................................................................................................... 2 22 53531 ......................CTCCGTCTCCAACGTCACT.................................................................................................................................................................................................................. 3 19 91636 ......................CTCCGTCTCCAACGTCACTCGGTA............................................................................................................................................................................................................. 1 24 379 ......................CTCCGTCTCCAACGTCAC................................................................................................................................................................................................................... 7 18 93621 ......................CTCCGTCTCCAACGTCACTC................................................................................................................................................................................................................. 1 20 86646 .......................TCCGTCTCCAACGTCACTCG................................................................................................................................................................................................................ 3 20 87580 .......................TCCGTCTCCAACGTCACTCGG............................................................................................................................................................................................................... 1 21 57277 .......................TCCGTCTCCAACGTCACT.................................................................................................................................................................................................................. 3 18 98233 .......................TCCGTCTCCAACGTCACTC................................................................................................................................................................................................................. 4 19 92835 ........................CCGTCTCCAACGTCACTCG................................................................................................................................................................................................................ 4 19 91114 ........................CCGTCTCCAACGTCACTCGG............................................................................................................................................................................................................... 3 20 59555 ........................CCGTCTCCAACGTCACTCGGT.............................................................................................................................................................................................................. 7 21 28001 ........................CCGTCTCCAACGTCACTC................................................................................................................................................................................................................. 9 18 96589 .........................CGTCTCCAACGTCACTCG................................................................................................................................................................................................................ 49 18 97955 .........................CGTCTCCAACGTCACTCGG............................................................................................................................................................................................................... 18 19 63960 .........................CGTCTCCAACGTCACTCGGT.............................................................................................................................................................................................................. 20 20 30123 ..........................GTCTCCAACGTCACTCGG............................................................................................................................................................................................................... 4 18 69176 ..........................GTCTCCAACGTCACTCGGT.............................................................................................................................................................................................................. 2 19 32542 ..........................GTCTCCAACGTCACTCGGTACTA.......................................................................................................................................................................................................... 1 23 339 ...............................CAACGTCACTCGGTACTA.......................................................................................................................................................................................................... 1 18 2011 ...........................................................TCGAGGTCGGACCCACTGTC............................................................................................................................................................................ 1 20 93 ............................................................CGAGGTCGGACCCACTGTCT........................................................................................................................................................................... 3 20 2078 ............................................................CGAGGTCGGACCCACTGTCTC.......................................................................................................................................................................... 1 21 1892 .............................................................GAGGTCGGACCCACTGTCTCACTCTG.................................................................................................................................................................... 7 26 23643 .............................................................GAGGTCGGACCCACTGTCTCACTCT..................................................................................................................................................................... 4 25 26485 .............................................................GAGGTCGGACCCACTGTCT........................................................................................................................................................................... 57 19 101335 .............................................................GAGGTCGGACCCACTGTCTCA......................................................................................................................................................................... 5 21 34482 .............................................................GAGGTCGGACCCACTGTCTCAC........................................................................................................................................................................ 26 22 30946 .............................................................GAGGTCGGACCCACTGTCTC.......................................................................................................................................................................... 8 20 92572 .............................................................GAGGTCGGACCCACTGTC............................................................................................................................................................................ 10 18 108825 ..............................................................AGGTCGGACCCACTGTCTCACTCTGG................................................................................................................................................................... 1 26 6047 ..............................................................AGGTCGGACCCACTGTCTCACTCTG.................................................................................................................................................................... 2 25 25477 ..............................................................AGGTCGGACCCACTGTCTCACT....................................................................................................................................................................... 8 22 32515 ..............................................................AGGTCGGACCCACTGTCTCACTCT..................................................................................................................................................................... 1 24 28600 ..............................................................AGGTCGGACCCACTGTCT........................................................................................................................................................................... 8 18 109205 ..............................................................AGGTCGGACCCACTGTCTCA......................................................................................................................................................................... 2 20 37261 ..............................................................AGGTCGGACCCACTGTCTCAC........................................................................................................................................................................ 38 21 33399 ..............................................................AGGTCGGACCCACTGTCTCACTC...................................................................................................................................................................... 1 23 29883 ..............................................................AGGTCGGACCCACTGTCTC.......................................................................................................................................................................... 4 19 99637 ...............................................................GGTCGGACCCACTGTCTCACTCTG.................................................................................................................................................................... 1 24 26438 ...............................................................GGTCGGACCCACTGTCTCACT....................................................................................................................................................................... 3 21 33775 ...............................................................GGTCGGACCCACTGTCTCACTCT..................................................................................................................................................................... 2 23 29709 ...............................................................GGTCGGACCCACTGTCTCAC........................................................................................................................................................................ 10 20 34697 ...............................................................GGTCGGACCCACTGTCTCACTC...................................................................................................................................................................... 2 22 31039 ...............................................................GGTCGGACCCACTGTCTC.......................................................................................................................................................................... 5 18 103132 ................................................................GTCGGACCCACTGTCTCACTCTGG................................................................................................................................................................... 2 24 7164 ................................................................GTCGGACCCACTGTCTCACTCTG.................................................................................................................................................................... 3 23 28666 ................................................................GTCGGACCCACTGTCTCACT....................................................................................................................................................................... 9 20 36660 ................................................................GTCGGACCCACTGTCTCACTCT..................................................................................................................................................................... 2 22 32253 ................................................................GTCGGACCCACTGTCTCAC........................................................................................................................................................................ 8 19 37652 ................................................................GTCGGACCCACTGTCTCACTC...................................................................................................................................................................... 5 21 33701 .................................................................TCGGACCCACTGTCTCACTCTG.................................................................................................................................................................... 1 22 31115 .................................................................TCGGACCCACTGTCTCACT....................................................................................................................................................................... 3 19 39919 .................................................................TCGGACCCACTGTCTCACTCT..................................................................................................................................................................... 3 21 35082 .................................................................TCGGACCCACTGTCTCAC........................................................................................................................................................................ 3 18 41016 .................................................................TCGGACCCACTGTCTCACTC...................................................................................................................................................................... 3 20 36673 ..................................................................CGGACCCACTGTCTCACTCTGG................................................................................................................................................................... 2 22 8304 ..................................................................CGGACCCACTGTCTCACTCTG.................................................................................................................................................................... 5 21 32010 ..................................................................CGGACCCACTGTCTCACT....................................................................................................................................................................... 5 18 41098 ..................................................................CGGACCCACTGTCTCACTCT..................................................................................................................................................................... 7 20 36100 ..................................................................CGGACCCACTGTCTCACTCTGGC.................................................................................................................................................................. 1 23 133 ..................................................................CGGACCCACTGTCTCACTC...................................................................................................................................................................... 19 19 37759 ...................................................................GGACCCACTGTCTCACTCTG.................................................................................................................................................................... 2 20 34290 ...................................................................GGACCCACTGTCTCACTCT..................................................................................................................................................................... 5 19 38732 ...................................................................GGACCCACTGTCTCACTC...................................................................................................................................................................... 4 18 40533 ....................................................................GACCCACTGTCTCACTCTGG................................................................................................................................................................... 1 20 10297 ....................................................................GACCCACTGTCTCACTCTG.................................................................................................................................................................... 5 19 37182 ....................................................................GACCCACTGTCTCACTCT..................................................................................................................................................................... 1 18 42080 .....................................................................ACCCACTGTCTCACTCTG.................................................................................................................................................................... 1 18 39668 ..................................................................................................................................................TCCTCCGAGTCCACCCTC....................................................................................... 1 18 172 ...................................................................................................................................................CCTCCGAGTCCACCCTCCT..................................................................................... 1 19 423 ...................................................................................................................................................CCTCCGAGTCCACCCTCC...................................................................................... 2 18 449 ....................................................................................................................................................CTCCGAGTCCACCCTCCT..................................................................................... 1 18 486 .......................................................................................................................................................CGAGTCCACCCTCCTAGTG................................................................................. 1 19 200 ...........................................................................................................................................................TCCACCCTCCTAGTGAACTCG........................................................................... 1 21 11505 ...........................................................................................................................................................TCCACCCTCCTAGTGAACTCGGGTCCT..................................................................... 1 27 4475 ...........................................................................................................................................................TCCACCCTCCTAGTGAACTCGGGTCC...................................................................... 3 26 4807 ...........................................................................................................................................................TCCACCCTCCTAGTGAACTCGGGTC....................................................................... 1 25 5369 ............................................................................................................................................................CCACCCTCCTAGTGAACTCGGGTCCT..................................................................... 1 26 4708 ............................................................................................................................................................CCACCCTCCTAGTGAACTCGGGT........................................................................ 2 23 6246 ............................................................................................................................................................CCACCCTCCTAGTGAACTCGGGTCC...................................................................... 2 25 5055 ............................................................................................................................................................CCACCCTCCTAGTGAACTC............................................................................ 1 19 16816 ............................................................................................................................................................CCACCCTCCTAGTGAACTCGGGTC....................................................................... 3 24 5648 .............................................................................................................................................................CACCCTCCTAGTGAACTC............................................................................ 1 18 19539 ..............................................................................................................................................................ACCCTCCTAGTGAACTCG........................................................................... 1 18 16465 ..............................................................................................................................................................ACCCTCCTAGTGAACTCGG.......................................................................... 1 19 14300 ..............................................................................................................................................................ACCCTCCTAGTGAACTCGGGT........................................................................ 4 21 8638 ..............................................................................................................................................................ACCCTCCTAGTGAACTCGGGTCCTCAGAC................................................................ 1 29 48 ..............................................................................................................................................................ACCCTCCTAGTGAACTCGGGTC....................................................................... 2 22 7805 ...............................................................................................................................................................CCCTCCTAGTGAACTCGGGTCCT..................................................................... 3 23 7923 ...............................................................................................................................................................CCCTCCTAGTGAACTCGGGT........................................................................ 1 20 10499 ...............................................................................................................................................................CCCTCCTAGTGAACTCGGGTCC...................................................................... 3 22 8474 ...............................................................................................................................................................CCCTCCTAGTGAACTCGGGTCCTC.................................................................... 2 24 6802 ...............................................................................................................................................................CCCTCCTAGTGAACTCGGGTC....................................................................... 1 21 9506 ................................................................................................................................................................CCTCCTAGTGAACTCGGG......................................................................... 1 18 21175 ................................................................................................................................................................CCTCCTAGTGAACTCGGGTCCT..................................................................... 1 22 14572 ................................................................................................................................................................CCTCCTAGTGAACTCGGGT........................................................................ 1 19 19279 ................................................................................................................................................................CCTCCTAGTGAACTCGGGTCC...................................................................... 4 21 15530 ................................................................................................................................................................CCTCCTAGTGAACTCGGGTCCTC.................................................................... 2 23 12556 ................................................................................................................................................................CCTCCTAGTGAACTCGGGTC....................................................................... 11 20 17392 .................................................................................................................................................................CTCCTAGTGAACTCGGGTCCT..................................................................... 1 21 16545 .................................................................................................................................................................CTCCTAGTGAACTCGGGTCCTCA................................................................... 1 23 9293 .................................................................................................................................................................CTCCTAGTGAACTCGGGTCCTC.................................................................... 1 22 14243 .................................................................................................................................................................CTCCTAGTGAACTCGGGTC....................................................................... 1 19 19780 ..................................................................................................................................................................TCCTAGTGAACTCGGGTCCTC.................................................................... 2 21 15927 ...................................................................................................................................................................CCTAGTGAACTCGGGTCCT..................................................................... 2 19 21881 ...................................................................................................................................................................CCTAGTGAACTCGGGTCCTCA................................................................... 1 21 13053 ...................................................................................................................................................................CCTAGTGAACTCGGGTCC...................................................................... 4 18 23291 ...................................................................................................................................................................CCTAGTGAACTCGGGTCCTC.................................................................... 2 20 18926 ....................................................................................................................................................................CTAGTGAACTCGGGTCCT..................................................................... 2 18 26280 ....................................................................................................................................................................CTAGTGAACTCGGGTCCTCA................................................................... 6 20 16196 ....................................................................................................................................................................CTAGTGAACTCGGGTCCTC.................................................................... 16 19 22817 .....................................................................................................................................................................TAGTGAACTCGGGTCCTC.................................................................... 11 18 26911 ......................................................................................................................................................................AGTGAACTCGGGTCCTCA................................................................... 8 18 19384 .................................................................................................................................................................................................................................TCGGTGACGTGAGGTCGGA....... 5 19 7831 .................................................................................................................................................................................................................................TCGGTGACGTGAGGTCGGAC...... 10 20 7271 .................................................................................................................................................................................................................................TCGGTGACGTGAGGTCGGACC..... 2 21 6749 .................................................................................................................................................................................................................................TCGGTGACGTGAGGTCGGACCC.... 3 22 5919 ..................................................................................................................................................................................................................................CGGTGACGTGAGGTCGGACCCG... 2 22 94106 ..................................................................................................................................................................................................................................CGGTGACGTGAGGTCGGACCCGT.. 1 23 44445 ..................................................................................................................................................................................................................................CGGTGACGTGAGGTCGGACCCGTT. 2 24 41560 ..................................................................................................................................................................................................................................CGGTGACGTGAGGTCGGA....... 50 18 206225 ..................................................................................................................................................................................................................................CGGTGACGTGAGGTCGGAC...... 188 19 193697 ..................................................................................................................................................................................................................................CGGTGACGTGAGGTCGGACC..... 37 20 182431 ..................................................................................................................................................................................................................................CGGTGACGTGAGGTCGGACCC.... 77 21 160319 ...................................................................................................................................................................................................................................GGTGACGTGAGGTCGGACCCG... 5 21 136591 ...................................................................................................................................................................................................................................GGTGACGTGAGGTCGGACCCGT.. 3 22 68514 ...................................................................................................................................................................................................................................GGTGACGTGAGGTCGGACCCGTT. 6 23 64374 ...................................................................................................................................................................................................................................GGTGACGTGAGGTCGGAC...... 133 18 289828 ...................................................................................................................................................................................................................................GGTGACGTGAGGTCGGACC..... 33 19 271745 ...................................................................................................................................................................................................................................GGTGACGTGAGGTCGGACCC.... 80 20 238431 ....................................................................................................................................................................................................................................GTGACGTGAGGTCGGACCCG... 2 20 145033 ....................................................................................................................................................................................................................................GTGACGTGAGGTCGGACCCGT.. 4 21 73420 ....................................................................................................................................................................................................................................GTGACGTGAGGTCGGACCCGTT. 9 22 69025 ....................................................................................................................................................................................................................................GTGACGTGAGGTCGGACC..... 13 18 290607 ....................................................................................................................................................................................................................................GTGACGTGAGGTCGGACCC.... 33 19 254828 .....................................................................................................................................................................................................................................TGACGTGAGGTCGGACCCG... 7 19 150880 .....................................................................................................................................................................................................................................TGACGTGAGGTCGGACCCGT.. 5 20 76896 .....................................................................................................................................................................................................................................TGACGTGAGGTCGGACCCGTT. 5 21 72295 .....................................................................................................................................................................................................................................TGACGTGAGGTCGGACCC.... 51 18 265984 ......................................................................................................................................................................................................................................GACGTGAGGTCGGACCCG... 4 18 156997 ......................................................................................................................................................................................................................................GACGTGAGGTCGGACCCGT.. 2 19 80286 ......................................................................................................................................................................................................................................GACGTGAGGTCGGACCCGTT. 4 20 75483 .......................................................................................................................................................................................................................................ACGTGAGGTCGGACCCGTT. 2 19 118177 ........................................................................................................................................................................................................................................CGTGAGGTCGGACCCGTT. 13 18 122614 ........................................................................................................................................................................................................................................CGTGAGGTCGGACCCGTTC 4 19 2990 .........................................................................................................................................................................................................................................GTGAGGTCGGACCCGTTC 1 18 3202 >chr16_66310966_66311170_-_LINE_IR_siRNA GGUUUUUUUUUUCUUGAAUUAAAGCUCAGAGUUGAUCUUUAUGUAGUAUUUUGCUAUUUCCAAGUUUUUGAAGCAUACUGAAAGCCUCUACUUCAUCACCUUGAAAAGGCAAAACUAGAGGCUUUCAGUGUGCUUCAAAAACUUGGAAAUAGCAAAAUACUACAUAAAGACCAACUCUGAGCAUUAAUUCAAGAAAAAAAAAAAA ..((((((((((((((((((((.(((((((((((.(((((((((((((((((((((((((((((((((((((((((((((((((((((((........(((.....)))......))))))))))))))))))))))))))))))))))))))))))))))))))))))).))))))))))).)))))))))))))))))))).. (-133.54) ..................................................................TTTGAAGCATACTGAAAGC........................................................................................................................ 1 19 1 ..................................................................TTTGAAGCATACTGAAAGCCT...................................................................................................................... 3 21 1 ..................................................................TTTGAAGCATACTGAAAGCCTC..................................................................................................................... 4 22 1 ...................................................................TTGAAGCATACTGAAAGC........................................................................................................................ 1 18 1 ......................................................................AAGCATACTGAAAGCCTCTACT................................................................................................................. 1 22 1 .......................................................................AGCATACTGAAAGCCTCTACTT................................................................................................................ 1 22 1 negative ......................................................................................................................................................TCGTTTTATGATGTATTTCTG.................................. 1 21 1 >chr4_53528484_53528758_+_LTR_IR_siRNA GAUAGCUAGGACAUGAACAGAAUGCACCCAAGCACUUUGCUAAGGCAAAACAUGCGUGACCUUUGCUCUAGUUCCCAAUAAUUUCCUUAUUUCCAUUCGAGACCUCAGAAGCCUGGACUUCAAACCAAAAUGCUGAUAGUGAUGUGAACAGUGAAGUCCAGGCUGCUGAGGCCUCAGAUGGAAAUUAGGAACUUACUGGGAACUAGAGCAAAGGUCACACAAUGUUAACGCCUUAGCAAAGAGCUUAGCUGCCUUCUGUUCAUGCCCUAGGAAUC (((..(((((.(((((((((((.(((.(.((((.((((((((((((..((((((.((((((((((((((((((((((.(((.(((((.((((((((..(((.((((((.(((((((((((((........((.(.(((....))).).)).))))))))))))).)))))).)))..)))))))).))))).))).)))))))))))))))))))))).).)))))...)))))))))))).)))).).))).))))))))))).)))))..))) (-164.40) ...AGCTAGGACATGAACAGAATGCA......................................................................................................................................................................................................................................................... 1 23 1 ......TAGGACATGAACAGAATGC.......................................................................................................................................................................................................................................................... 1 19 3 .......AGGACATGAACAGAATGC.......................................................................................................................................................................................................................................................... 1 18 4 ..............................................................................................ATTCGAGACCTCAGAAGC................................................................................................................................................................... 2 18 1 ...............................................................................................TTCGAGACCTCAGAAGCCTG................................................................................................................................................................ 1 20 1 ...............................................................................................TTCGAGACCTCAGAAGCCTGG............................................................................................................................................................... 11 21 1 ...............................................................................................TTCGAGACCTCAGAAGCCTGGA.............................................................................................................................................................. 12 22 1 ...............................................................................................TTCGAGACCTCAGAAGCCTGGAC............................................................................................................................................................. 9 23 1 ...............................................................................................TTCGAGACCTCAGAAGCCTGGACT............................................................................................................................................................ 3 24 1 ................................................................................................TCGAGACCTCAGAAGCCTGG............................................................................................................................................................... 3 20 1 ................................................................................................TCGAGACCTCAGAAGCCTGGAC............................................................................................................................................................. 5 22 1 ................................................................................................TCGAGACCTCAGAAGCCTGGACT............................................................................................................................................................ 2 23 1 .................................................................................................CGAGACCTCAGAAGCCTGGAC............................................................................................................................................................. 1 21 1 .................................................................................................CGAGACCTCAGAAGCCTGGACT............................................................................................................................................................ 4 22 1 ..................................................................................................GAGACCTCAGAAGCCTGGACTTC.......................................................................................................................................................... 1 23 2 ...................................................................................................AGACCTCAGAAGCCTGGAC............................................................................................................................................................. 1 19 4 ...................................................................................................AGACCTCAGAAGCCTGGACTT........................................................................................................................................................... 1 21 3 ...................................................................................................AGACCTCAGAAGCCTGGACTTC.......................................................................................................................................................... 7 22 3 ...................................................................................................AGACCTCAGAAGCCTGGACTTCA......................................................................................................................................................... 2 23 3 ....................................................................................................GACCTCAGAAGCCTGGACTT........................................................................................................................................................... 1 20 3 ...........................................................................................................................ACCAAAATGCTGATAGTG...................................................................................................................................... 1 18 1365 .......................................................................................................................................ATAGTGATGTGAACAGTGAAGTCCAGGCT............................................................................................................... 1 29 4 ..................................................................................................................................................AACAGTGAAGTCCAGGCTGCTG........................................................................................................... 1 22 2 negative >chr1_82174864_82174941_-_Made1#1 TTAGGGTGGTATAAAAGTAATTGTGGTATTTGCCATTAAAGTACTGCAAAAGCCGAAATTACTTTTGCACCAACCTAA .((((.((((.(((((((((((.((((.(((((............))))).)))).))))))))))).)))).)))). (-29.40) ...........TAAAAGTAATTGTGGTATT................................................ 6 19 1 ...........TAAAAGTAATTGTGGTATTT............................................... 1 20 1 ...........TAAAAGTAATTGTGGTATTTG.............................................. 71 21 1 ...........TAAAAGTAATTGTGGTATTTGC............................................. 1944 22 1 ...........TAAAAGTAATTGTGGTATTTGCC............................................ 2 23 1 ...............................................AAAAGCCGAAATTACTTTTGCA......... 1 22 1 negative >chr1_183752471_183752547_-_Made1#2 TTAGATTGGCACAAAAGTAACTGTGGTTTTGCATTGAAAGTATAGCAAAAACCACAATTACTTTTGCACCAATCCAA ...((((((..(((((((((.(((((((((((............)).))))))))).)))))))))..))))))... (-30.50) ..........ACAAAAGTAACTGTGGTTTTGC............................................. 3 22 1 ...........CAAAAGTAACTGTGGTTTTGCA............................................ 8 22 1 negative >chr1_235107531_235107603_-_Made1#3 TTAGGTTGTGCAAAAGTAATTGCGGTTTTTGCCACTAAAGGTAATGGTGAGAACCGCGATTACTTTCACACCA ...(((.(((..(((((((((((((((((..(((.((....)).)))..))))))))))))))))))))))). (-36.50) ...............................................TGAGAACCGCGATTACTTT....... 1 19 1 ...............................................TGAGAACCGCGATTACTTTC...... 2 20 1 ...............................................TGAGAACCGCGATTACTTTCA..... 4 21 1 ...............................................TGAGAACCGCGATTACTTTCAC.... 4 22 1 negative >chr10_24007027_24007109_-_Made1#4 TTAAGTTGGTGCAAAAGTTATTGCGGTTTTTGCCAGTTCCAAAACCAATGGCCAAAACTGCAGTTACCTTTGCACCAACCTAA ....(((((((((((.((.(((((((((((.((((.............)))).))))))))))).)).))))))))))).... (-38.32) ...................................................CCAAAACTGCAGTTACCTTTG........... 2 21 1 ...................................................CCAAAACTGCAGTTACCTTTGC.......... 2 22 1 ...................................................CCAAAACTGCAGTTACCTTTGCA......... 1 23 1 negative >chr10_68389161_68389229_-_Made1#5 TTAGGTTGGTGCAAAAGTGATTGTGGTTTTTGCAATGGCAGAAACTGCAATTACTTTTGCACCAACCTA .((((((((((((((((((((((..((((((((....))))))))..)))))))))))))))))))))) (-49.70) ...........CAAAAGTGATTGTGGTTTTTGCA................................... 6 23 1 ............AAAAGTGATTGTGGTTTTTGCA................................... 1 22 1 ............AAAAGTGATTGTGGTTTTTGCAA.................................. 2 23 1 .............AAAGTGATTGTGGTTTTTGCA................................... 1 21 1 .............AAAGTGATTGTGGTTTTTGCAA.................................. 4 22 1 .........................GTTTTTGCAATGGCAGAA.......................... 1 18 1 negative >chr10_125670996_125671075_+_Made1#6 TTAGGTTGGTGCAAAAGTAATTGTGGGTTTTGCCATTAGTTTTAAAGGCAAAACCCACCATTACTTTCGCACCAACCTAA .(((((((((((.((((((((.((((((((((((.(((....))).)))))))))))).)))))))).))))))))))). (-50.50) negative ..............................................CCGTTTTGGGTGGTAATGAAAG............ 10 22 1 ...............................................CGTTTTGGGTGGTAATGAAAG............ 6 21 1 ................................................GTTTTGGGTGGTAATGAAAG............ 2 20 1 .................................................TTTTGGGTGGTAATGAAAGC........... 1 20 1 >chr11_20033822_20033901_+_Made1#7 TTAGGTTGGTGCAAAAGTAATTGTGGTTTTTGCCATTACTCTTAATTGTGAAAACTGCACTTACTTTTGCACCAACCTAA .(((((((((((((((((((.((..(((((..(.((((....)))).)..)))))..)).))))))))))))))))))). (-45.10) ................................................TGAAAACTGCACTTACTTTTG........... 1 21 1 ................................................TGAAAACTGCACTTACTTTTGC.......... 14 22 1 negative >chr12_72267908_72267986_+_Made1#8 TTAGGTTGGTGCAAAGGTAATTGAGGTCTTTGACATTGCTTTAATGGCAAACACCGCAATTACTTTTGCACCAGCCTAA .((((((((((((((((((((((.(((.((((.(((((...))))).)))).))).)))))))))))))))))))))). (-44.80) ............AAAGGTAATTGAGGTCTTTGA.............................................. 6 21 1 ............AAAGGTAATTGAGGTCTTTGAC............................................. 4 22 1 ............AAAGGTAATTGAGGTCTTTGACA............................................ 6 23 1 .............AAGGTAATTGAGGTCTTTGA.............................................. 1 20 1 .............AAGGTAATTGAGGTCTTTGAC............................................. 2 21 1 .............AAGGTAATTGAGGTCTTTGACA............................................ 2 22 1 ..............AGGTAATTGAGGTCTTTGACA............................................ 1 21 1 negative >chr14_96672883_96672962_-_Made1#9 TTAGGTTGGTGCAAAAGTCATCTCGGTTCTTGCCATTAGAAGTAATGCCAAAAACCGCAATGACTTTTGCACCAACCGAA ...((((((((((((((((((..(((((.(((.(((((....))))).))).)))))..))))))))))))))))))... (-44.30) ...........CAAAAGTCATCTCGGTTCTTGC............................................... 9 22 1 ...........CAAAAGTCATCTCGGTTCTTGCC.............................................. 3 23 1 ............AAAAGTCATCTCGGTTCTTG................................................ 1 20 1 ............AAAAGTCATCTCGGTTCTTGC............................................... 2 21 1 ............AAAAGTCATCTCGGTTCTTGCC.............................................. 8 22 1 .....................CTCGGTTCTTGCCATTAGAAGT..................................... 1 22 1 negative >chr14_102828042_102828118_+_Made1#10 TTAGCTTGGTGCAAAAGTAACAGATTTTGCCATTACTTTTAACAGCCAAAATTGCCATTACTTTTGCACCAACCTAA .(((.(((((((((((((((..((((((((..(((....)))..).)))))))....))))))))))))))).))). (-26.70) negative ..TCGAACCACGTTTTCATTGTCT..................................................... 2 22 1 ..TCGAACCACGTTTTCATTGTCTA.................................................... 5 23 1 ..TCGAACCACGTTTTCATTGTCTAA................................................... 1 24 1 ...CGAACCACGTTTTCATTGTCT..................................................... 5 21 1 ...CGAACCACGTTTTCATTGTCTA.................................................... 26 22 1 ...CGAACCACGTTTTCATTGTCTAA................................................... 5 23 1 ....GAACCACGTTTTCATTGTCTAAA.................................................. 1 23 1 ....GAACCACGTTTTCATTGTCTA.................................................... 11 21 1 ....GAACCACGTTTTCATTGTCTAA................................................... 10 22 1 ............................................CGGTTTTAACGGTAATGAAAACGT......... 1 24 1 >chr15_94624333_94624411_-_Made1#11 TAAGTTGGTACAAAAGTAATTGCGATTTTTGGCACTAAAAGTAATGGCAAAAACCGCAATTACTTTTGCACCAACCTAA ...((((((.((((((((((((((.((((((.((.((....)).)).)))))).)))))))))))))).)))))).... (-34.90) .........ACAAAAGTAATTGCGATTTTTGG............................................... 2 23 1 ...........AAAAGTAATTGCGATTTTTGG............................................... 4 21 1 ...........AAAAGTAATTGCGATTTTTGGC.............................................. 1 22 1 ...........AAAAGTAATTGCGATTTTTGGCA............................................. 1 23 1 ............AAAGTAATTGCGATTTTTGG............................................... 6 20 1 ............AAAGTAATTGCGATTTTTGGC.............................................. 2 21 1 ............AAAGTAATTGCGATTTTTGGCA............................................. 1 22 1 .............AAGTAATTGCGATTTTTGG............................................... 1 19 1 .............AAGTAATTGCGATTTTTGGCA............................................. 1 21 1 negative >chr16_47708265_47708339_-_Made1#12 GTTGGTGCAAAAGTAATCGTGGTTTTTGCCATTGAAAGTAGTGGCTGAAACCACAATTGCTTTGCACTAACCTAA (((((((((((.(((((.((((((((.(((((((....))))))).)))))))).)))))))))))))))).... (-39.60) ............................................CTGAAACCACAATTGCTTTGC.......... 19 21 1 ............................................CTGAAACCACAATTGCTTTGCA......... 5 22 1 .............................................TGAAACCACAATTGCTTTGCA......... 2 21 1 negative >chr16_79750312_79750392_+_Made1#13 TTAGGTTGGTGCAAAAGTAATTGCAGTTTCGGGCTCTAGTTTTAAGTGGCAGAGACCACAATTACTTTTGTGCCAACCTAA .((((((((..((((((((((((..(((((..(((((.......)).))).)))))..))))))))))))..)))))))). (-41.00) negative ................................................CGTCTCTGGTGTTAATGAAAACA.......... 18 23 1 .................................................GTCTCTGGTGTTAATGAAAACA.......... 23 22 1 ..................................................TCTCTGGTGTTAATGAAAACA.......... 8 21 1 >chr17_40646790_40646858_-_Made1#14 CAAAAGTTATTGCGGTTTTGGCTGCCAAAAGAAATGGCCAAAACCGCAGTAACTTTTGTGCCAACCTAA (((((((((((((((((((((((............)))))))))))))))))))))))........... (-34.90) .AAAAGTTATTGCGGTTTTGGC............................................... 9 21 1 .AAAAGTTATTGCGGTTTTGGCT.............................................. 12 22 1 .....................................CCAAAACCGCAGTAACTTTT............ 1 20 1 .....................................CCAAAACCGCAGTAACTTTTG........... 2 21 1 .....................................CCAAAACCGCAGTAACTTTTGT.......... 1 22 1 ......................................CAAAACCGCAGTAACTTTTG........... 2 20 1 ......................................CAAAACCGCAGTAACTTTTGT.......... 1 21 1 .......................................AAAACCGCAGTAACTTTTGTGC........ 1 22 1 negative >chr17_66383129_66383208_+_Made1#15 TTAGGTTGGTGCAAAAGTTGTTGCGGTTTTTGCCATTACTTTTAGTAGCAAAAACTGCAATGACTTTCGCACCAACCTAA .(((((((((((.(((((..(((((((((((((.((((....)))).)))))))))))))..))))).))))))))))). (-48.90) .................................................AAAAACTGCAATGACTTTCG........... 1 20 1 ..................................................AAAACTGCAATGACTTTCGCA......... 1 21 1 ...................................................AAACTGCAATGACTTTCGCACC....... 3 22 1 ....................................................AACTGCAATGACTTTCGCAC........ 1 20 1 ....................................................AACTGCAATGACTTTCGCACC....... 3 21 1 ....................................................AACTGCAATGACTTTCGCACCA...... 1 22 1 ....................................................AACTGCAATGACTTTCGCACCAA..... 3 23 1 .....................................................ACTGCAATGACTTTCGCACCAA..... 1 22 1 negative >chr2_49286730_49286810_-_Made1#16 TTAGGCTGGTGCAAAGGTAACTGTGATTTTTGCTATTAGAAAGTAATGGCAAAAACTGCAATTACTTTTATATCAACCTAA .((((.(((((.((((((((.(((..((((((((((((.....))))))))))))..))).)))))))).))))).)))). (-31.30) ...........CAAAGGTAACTGTGATTTTTG................................................. 6 21 1 ...........CAAAGGTAACTGTGATTTTTGC................................................ 27 22 1 ............AAAGGTAACTGTGATTTTTG................................................. 5 20 1 ............AAAGGTAACTGTGATTTTTGC................................................ 70 21 1 ............AAAGGTAACTGTGATTTTTGCT............................................... 300 22 1 ............AAAGGTAACTGTGATTTTTGCTA.............................................. 10 23 1 .............AAGGTAACTGTGATTTTTGCT............................................... 4 21 1 negative >chr2_54806171_54806249_-_Made1#17 TTAGGCTGGTGCAAAAGTAATTGTGGCTTTTGCAATTAAAAGTAATGACAAAACTACAATTACTTCTGCACCAACCTAA .((((.(((((((.((((((((((((.(((((..((((....))))..))))))))))))))))).))))))).)))). (-36.80) ................................................CAAAACTACAATTACTTCTGC.......... 1 21 1 ..................................................AAACTACAATTACTTCTGCAC........ 1 21 1 negative ...................................................TTGATGTTAATGAAGACGTGG....... 1 21 1 ...................................................TTGATGTTAATGAAGACGTGGTTG.... 2 24 1 ...................................................TTGATGTTAATGAAGACGTGGT...... 2 22 1 ...................................................TTGATGTTAATGAAGACGTGGTT..... 5 23 1 ....................................................TGATGTTAATGAAGACGTGGTTG.... 1 23 1 ....................................................TGATGTTAATGAAGACGTGGT...... 1 21 1 ....................................................TGATGTTAATGAAGACGTGGTT..... 5 22 1 .....................................................GATGTTAATGAAGACGTGGTT..... 1 21 1 >chr2_72878633_72878708_-_Made1#18 TTAGGTTGTTGCAAAAGTAATTGCAGTTTTCAGCCATTAAAACAGCAAAACTGCAATTACTTTCACACCATCCTAA .((((.((.((..(((((((((((((((((..((..........)))))))))))))))))))..)).)).)))). (-27.40) negative ...........................................TCGTTTTGACGTTAATGAAAGT........... 7 22 1 ............................................CGTTTTGACGTTAATGAAAGT........... 2 21 1 >chr2_96656055_96656137_+_Made1#19 TTAGATTGGTGCAAAGGCAATTGCAGTTTTCGCCATTACTTGTAATTGCGGCAAAAACCGCAATTGCTTTTGCACCAACCTAA .(((.(((((((((((((((((((.(((((.(((((((....))))...))).))))).))))))))))))))))))).))). (-42.90) negative ..........CGTTTCCGTTAACGTCAAAAGC................................................... 10 22 1 ...........GTTTCCGTTAACGTCAAAAGC................................................... 2 21 1 >chr2_137402682_137402759_-_Made1#20 AGGCTGGTGCAAAAGTAATTGTGGTTTTTGCCATTGAAAGTAATGACAAAATCCGCAATTACTTTTGTACCAACCTAA (((.((((((((((((((((((((.(((((.(((((....))))).))))).)))))))))))))))))))).))).. (-41.40) negative .........................................TTACTGTTTTAGGCGTTAATGAA.............. 1 23 1 ..........................................TACTGTTTTAGGCGTTAATGAAAA............ 1 24 1 ...........................................ACTGTTTTAGGCGTTAATGAAAA............ 3 23 1 ............................................CTGTTTTAGGCGTTAATGAAA............. 1 21 1 ............................................CTGTTTTAGGCGTTAATGAAAA............ 12 22 1 .............................................TGTTTTAGGCGTTAATGAAAA............ 7 21 1 >chr21_36253203_36253279_+_Made1#21 TTAGGTTGGTGCAAAAGTAATTGCAGTGTTTGCAATTTTTAACTCCAAAAACTGCAGTTACATTTGCACCAACCTAA .((((((((((((((.(((((((((((.((((.............)))).))))))))))).)))))))))))))). (-40.62) negative ...........................................AGGTTTTTGACGTCAATGTAAA............ 8 22 1 ............................................GGTTTTTGACGTCAATGTAAA............ 5 21 1 ............................................GGTTTTTGACGTCAATGTAAAC........... 1 22 1 >chr4_175636930_175637008_-_Made1#22 TTAGGCTGGTGCTAAAGTAATCGTGGGTTTTGCCATTAAAAGTGCTGGCAAAACAGCAATTACTTTTGCACTAACCTAA .((((.((((((.((((((((.((..(((((((((.((....)).))))))))).)).)))))))).)))))).)))). (-35.20) ............TAAAGTAATCGTGGGTTTTGC.............................................. 11 21 1 ............TAAAGTAATCGTGGGTTTTGCC............................................. 8 22 1 ............TAAAGTAATCGTGGGTTTTGCCA............................................ 2 23 1 ............TAAAGTAATCGTGGGTTTTGCCATT.......................................... 1 25 1 negative >chr5_31470534_31470597_-_Made1#23 TTAGTTTGGTGCAAAAATAGTTGCGGTATGGCAGACCCCCGCAACTACTTTTGTGCCAGCCTAA .(((.((((..(((((.(((((((((...((....)).))))))))).)))))..)))).))). (-30.60) negative ..TCAAACCACGTTTTTATCAAC......................................... 1 21 1 .....................................GGGCGTTGATGAAAACACGGT...... 1 21 1 .....................................GGGCGTTGATGAAAACACGGTC..... 7 22 1 ......................................GGCGTTGATGAAAACACGGTC..... 9 21 1 .......................................GCGTTGATGAAAACACGGTCGG... 1 22 1 .......................................GCGTTGATGAAAACACGGTC..... 1 20 1 ........................................CGTTGATGAAAACACGGTCGG... 2 21 1 ........................................CGTTGATGAAAACACGGTC..... 1 19 1 >chr5_55858293_55858360_-_Made1#24 TTAGGTTGGTGCCAAAGTGATTGCAGTTTTTACCACTGAAAGTGGCAATCACTTTGGCACCAACCTAA .(((((((((((((((((((((((..((((((....))))))..))))))))))))))))))))))). (-45.80) ....GTTGGTGCCAAAGTGATTGCA........................................... 10 21 1 .....TTGGTGCCAAAGTGATTGCAGT......................................... 2 22 1 ..........................................TGGCAATCACTTTGGCACCAA..... 1 21 1 ..........................................TGGCAATCACTTTGGCACCAAC.... 4 22 1 ..........................................TGGCAATCACTTTGGCACCAACC... 2 23 1 negative ...........................................CCGTTAGTGAAACCGTGGTTG.... 5 21 1 >chr5_150485436_150485514_+_Made1#25 TTAGGTTGGTGCCAAAGTAATTACAATTTTTGCCATCACTTTCAATGGCAAAACTGCAATGACTTTTGCACCAACCTAA .(((((((((((.(((((.(((.((..(((((((((........))))))))).)).))).))))).))))))))))). (-35.30) negative .........ACGGTTTCATTAATGTTAAAAAC............................................... 2 23 1 ..........CGGTTTCATTAATGTTAAAAAC............................................... 12 22 1 >chr6_38630466_38630545_-_Made1#26 TTAGGTTGGGGCAAAGGTAATTGCGGTTTTTTCCATTGAAAGTAATGGCAAAAACCTTAATTACCTTTGCACCAAGCTAA .(((.((((.(((((((((((((.(((((((.((((((....)))))).))))))).))))))))))))).)))).))). (-40.90) ...............................................GCAAAAACCTTAATTACCTTTG........... 5 22 1 ................................................CAAAAACCTTAATTACCTTTG........... 2 21 1 ................................................CAAAAACCTTAATTACCTTTGC.......... 3 22 1 negative >chr6_108097497_108097575_-_Made1#27 TAGGTTGGTGCAGAAGTAGTCACGGTTTTTACCATTGAAACTAATAGCAAAAACCGCAATTACTTTTGCACCCACCCAA ..(((.((((((((((((((..((((((((.(.((((....)))).).))))))))..)))))))))))))).)))... (-34.70) negative ........ACGTCTTCATCAGTGCCAAAAAT................................................ 1 23 1 .........CGTCTTCATCAGTGCCAAAAAT................................................ 22 22 1 ..........GTCTTCATCAGTGCCAAAAAT................................................ 15 21 1 ...........TCTTCATCAGTGCCAAAAAT................................................ 2 20 1 >chr6_119499447_119499519_+_Made1#28 TTAGGTGGAACCATATGAAACTGCTGACAGTTTTTAAACTACAAATGCAGCAATTTCATATGTTTCAGCCTAA .(((((.(((.(((((((((.(((((.((................))))))).))))))))).))).))))). (-26.49) negative ..TCCACCTTGGTATACTTTGAC.................................................. 1 21 1 .......................GACTGTCAAAAATTTGATGTTTACGTCGT..................... 1 29 1 ...........................................TTACGTCGTTAAAGTATACAAAG....... 1 23 1 .................................................CGTTAAAGTATACAAAGTCGGAT. 6 23 1 ..................................................GTTAAAGTATACAAAGTCGGAT. 3 22 1 ..................................................GTTAAAGTATACAAAGTCGGATT 4 23 1 ...................................................TTAAAGTATACAAAGTCGGATT 1 22 1 ....................................................TAAAGTATACAAAGTCGGAT. 1 20 1 ....................................................TAAAGTATACAAAGTCGGATT 1 21 1 >chr8_27082383_27082437_+_Made1#29 TTAGGCTGGTGCAAAAGTAATGGCAAAAACTGCAATTACTTTTGCACCAACCTAA .((((.(((((((((((((((.(((.....))).))))))))))))))).)))). (-30.90) ..AGGCTGGTGCAAAAGTAATGGCA.............................. 11 23 1 ....GCTGGTGCAAAAGTAATGGCA.............................. 2 21 1 negative >chr8_41128575_41128654_+_Made1#30 TTAGGCTGTTGCAAAAGTAGTCACGGTCTTTGCCATTACTTTCAACTGCAAAAACCGTAGTTACTTCTGCATCAACCTAA .((((.((.((((.((((((..(((((.(((((..((......))..))))).)))))..)))))).)))).)).)))). (-29.60) negative .........ACGTTTTCATCAGTGCCAGAAA................................................. 6 22 1 .........ACGTTTTCATCAGTGCCAGAAAC................................................ 1 23 1 ..........CGTTTTCATCAGTGCCAGAAA................................................. 9 21 1 ..........CGTTTTCATCAGTGCCAGAAAC................................................ 3 22 1 ................................................GTTTTTGGCATCAATGAAGA............ 1 20 1 >chr9_96357111_96357181_+_Made1#31 TTAGGTTGGTACAAAAGTAATTGCGGTTTTTGCTATTGGTTTTAATGGCAGTTACTTTTGCACCAGCCTAA .(((((((((.(((((((((((((.(((...((.....))...))).))))))))))))).))))))))). (-35.60) .............................................TGGCAGTTACTTTTGCACCAG..... 4 21 1 .............................................TGGCAGTTACTTTTGCACCAGC.... 25 22 1 ..............................................GGCAGTTACTTTTGCACCAGC.... 1 21 1 negative >chr2_60343031_60343108_+_Made1#32 AGACTGCTGCAAAAGTCATTGTGGTTTTTGCCATTACTTTTAATGGCAAAGACTGCAAGGACTTTTGCACCAACCTAA ((..((.((((((((((.(((..(((((((((((((....)))))))))))))..))).)))))))))).))..)).. (-39.60) ..............................................CAAAGACTGCAAGGACTTTTGC.......... 1 22 1 ...............................................AAAGACTGCAAGGACTTTTGC.......... 3 21 1 .................................................AGACTGCAAGGACTTTTGCA......... 2 20 1 .................................................AGACTGCAAGGACTTTTGCAC........ 1 21 1 .................................................AGACTGCAAGGACTTTTGCACC....... 3 22 1 negative >chr8_68965595_68965658_-_Made1#33 TTAGGTTGGTGCAAAAGTTATTGCAGTTTTGACATTGAAAGCAATTACTTCTCCACCAACCTAA .((((((((((...((((.(((((..((........))..))))).))))...)))))))))). (-23.90) ..........................................AATTACTTCTCCACCAACCT.. 2 20 1 ..........................................AATTACTTCTCCACCAACCTA. 2 21 1 ..........................................AATTACTTCTCCACCAACCTAA 4 22 1 negative >chr9_135821094_135821159_-_Made1#47 TAGGTCGGTGCAAAAGTCATCACGGTTTTTACCATTAAAACCGCGATGACTTTTGCATCAACCTAA (((((.(((((((((((((((.(((((((.......))))))).))))))))))))))).))))). (-39.50) TAGGTCGGTGCAAAAGTCATCA............................................ 16 22 1 TAGGTCGGTGCAAAAGTCATCAC........................................... 1 23 1 TAGGTCGGTGCAAAAGTCATCACG.......................................... 3 24 1 .AGGTCGGTGCAAAAGTCATCA............................................ 8 21 1 .AGGTCGGTGCAAAAGTCATCAC........................................... 7 22 1 .AGGTCGGTGCAAAAGTCATCACG.......................................... 6 23 1 .AGGTCGGTGCAAAAGTCATCACGG......................................... 2 24 1 ..GGTCGGTGCAAAAGTCATCAC........................................... 2 21 1 ..GGTCGGTGCAAAAGTCATCACG.......................................... 2 22 1 ..GGTCGGTGCAAAAGTCATCACGG......................................... 2 23 1 ...GTCGGTGCAAAAGTCATCAC........................................... 3 20 1 ...GTCGGTGCAAAAGTCATCACG.......................................... 124 21 1 ...GTCGGTGCAAAAGTCATCACGG......................................... 677 22 1 ...GTCGGTGCAAAAGTCATCACGGT........................................ 979 23 1 ...GTCGGTGCAAAAGTCATCACGGTT....................................... 100 24 1 ...GTCGGTGCAAAAGTCATCACGGTTT...................................... 4 25 1 ....TCGGTGCAAAAGTCATCACGG......................................... 28 21 1 ....TCGGTGCAAAAGTCATCACGGT........................................ 18 22 1 ....TCGGTGCAAAAGTCATCACGGTT....................................... 19 23 1 .....CGGTGCAAAAGTCATCACGGT........................................ 1 21 1 .....CGGTGCAAAAGTCATCACGGTT....................................... 17 22 1 .....CGGTGCAAAAGTCATCACGGTTT...................................... 1 23 1 ......GGTGCAAAAGTCATCACGGTT....................................... 13 21 1 ......GGTGCAAAAGTCATCACGGTTT...................................... 1 22 1 .......GTGCAAAAGTCATCACGGT........................................ 2 19 1 .......GTGCAAAAGTCATCACGGTT....................................... 43 20 1 .......GTGCAAAAGTCATCACGGTTT...................................... 19 21 1 .......GTGCAAAAGTCATCACGGTTTT..................................... 5 22 1 .......GTGCAAAAGTCATCACGGTTTTT.................................... 2 23 1 ........TGCAAAAGTCATCACGGTT....................................... 1 19 1 ........TGCAAAAGTCATCACGGTTT...................................... 13 20 1 ........TGCAAAAGTCATCACGGTTTT..................................... 15 21 1 ...........AAAAGTCATCACGGTTTTTACC................................. 1 22 1 ............AAAGTCATCACGGTTTTTACC................................. 2 21 1 ............AAAGTCATCACGGTTTTTACCAT............................... 1 23 1 .............AAGTCATCACGGTTTTTACCATT.............................. 1 23 1 .................................ATTAAAACCGCGATGACTTTTG........... 1 22 1 ......................................AACCGCGATGACTTTTGCAT........ 2 20 1 ......................................AACCGCGATGACTTTTGCATC....... 4 21 1 ......................................AACCGCGATGACTTTTGCATCA...... 6 22 1 .......................................ACCGCGATGACTTTTGCATCAA..... 1 22 1 .......................................ACCGCGATGACTTTTGCATCAAC.... 1 23 1 ........................................CCGCGATGACTTTTGCAT........ 5 18 1 ........................................CCGCGATGACTTTTGCATC....... 6 19 1 ........................................CCGCGATGACTTTTGCATCA...... 12 20 1 ........................................CCGCGATGACTTTTGCATCAA..... 2 21 1 ........................................CCGCGATGACTTTTGCATCAAC.... 14 22 1 ........................................CCGCGATGACTTTTGCATCAACC... 2 23 1 ........................................CCGCGATGACTTTTGCATCAACCT.. 1 24 1 .........................................CGCGATGACTTTTGCATCA...... 1 19 1 negative .....GCCACGTTTTCAGTAGTGCCA........................................ 1 21 1 >chr1_214372322_214372394_+_piRNA-associated-siRNA UGAGCCCAGGAGUUGGAGAUCAGCCUGAGCAACAUAGCGAGACCCCGUCUCUAAAACAAAAAUUAAAUAAAAU ...((.((((...((.....)).)))).))........(((((...)))))...................... (-12.80) .......AGGAGTTGGAGATCAGCCT............................................... 1 19 386 ...........GTTGGAGATCAGCCTGA............................................. 1 17 78 ...................TCAGCCTGAGCAACATAGCGAGACCCCGT......................... 1 29 1 ...................TCAGCCTGAGCAACATAGCGAGACCC............................ 1 26 4 ...................TCAGCCTGAGCAACATAGC................................... 1 19 81 ...................TCAGCCTGAGCAACATA..................................... 1 17 279 ...................TCAGCCTGAGCAACATAGCG.................................. 2 20 14 ...................TCAGCCTGAGCAACATAG.................................... 2 18 239 ...................TCAGCCTGAGCAACATAGCGAGACC............................. 7 25 4 ....................CAGCCTGAGCAACATAGCGAG................................ 114 21 152 ....................CAGCCTGAGCAACATAGCGAGACCCCGT......................... 14 28 8 ....................CAGCCTGAGCAACATAGCGAGACCCCGTC........................ 18 29 7 ....................CAGCCTGAGCAACATAGCGAGACCCCGTTT....................... 1 30 5 ....................CAGCCTGAGCAACATAG.................................... 32 17 3123 .....................AGCCTGAGCAACATAGCGAGACCCCGTCTC...................... 12 30 5 .....................AGCCTGAGCAACATAGCGAGAC.............................. 97 22 138 ......................GCCTGAGCAACATAGCGAGACCCCGT......................... 10 26 8 ......................GCCTGAGCAACATAGCGAGACCCCGTC........................ 14 27 7 ......................GCCTGAGCAACATAGCGAGACCCCGTCTA...................... 1 29 6 ......................GCCTGAGCAACATAGCGAGACCCCG.......................... 22 25 9 ......................GCCTGAGCAACATAGCGA................................. 35 18 229 ......................GCCTGAGCAACATAGCG.................................. 56 17 240 ......................GCCTGAGCAACATAGCGAG................................ 72 19 193 ......................GCCTGAGCAACATAGCGAGACCCC........................... 89 24 40 ......................GCCTGAGCAACATAGCGAGAC.............................. 93 21 139 .......................CCTGAGCAACATAGCGAGACCCCGTCTC...................... 124 28 5 .......................CCTGAGCAACATAGCGAGACCCCGTCTCAA.................... 17 30 4 .......................CCTGAGCAACATAGCGAGACCCCGTCTCT..................... 1808 29 5 .......................CCTGAGCAACATAGCGAGACCCCGTCTCG..................... 1 29 5 .......................CCTGAGCAACATAGCGAGACCCCGTCTCGT.................... 2 30 2 .......................CCTGAGCAACATAGCGAGACCCCG.......................... 366 24 9 .......................CCTGAGCAACATAGCGAGACC............................. 3703 21 122 .......................CCTGAGCAACATAGCGAGACCCCGTCTCTA.................... 5246 30 4 .......................CCTGAGCAACATAGCGAGACCCCGTCTCCA.................... 5 30 4 .......................CCTGAGCAACATAGCGAGACCC............................ 737 22 92 .......................CCTGAGCAACATAGCGA................................. 74 17 258 ........................CTGAGCAACATAGCGAGACCCCGT......................... 108 24 10 ........................CTGAGCAACATAGCGAGACCCCGTCTCTTA................... 1777 30 2 ........................CTGAGCAACATAGCGAGACCCCGTCTCTCA................... 2 30 4 ........................CTGAGCAACATAGCGAGACCCCGTCTCTTT................... 315 30 2 ........................CTGAGCAACATAGCGAGACCCC........................... 321 22 53 ........................CTGAGCAACATAGCGAGACCCCGTCTCTT.................... 4592 29 2 ........................CTGAGCAACATAGCGAGACCCCGTCTCTA.................... 4819 29 4 ........................CTGAGCAACATAGCGAGACCCCGTCTCTAG................... 4 30 4 ........................CTGAGCAACATAGCGAGACCCCG.......................... 86 23 11 ........................CTGAGCAACATAGCGAGACCCCGTCTCTAA................... 88 30 4 ........................CTGAGCAACATAGCGAGACCCCGTCTCTGA................... 9 30 2 .........................TGAGCAACATAGCGAGACCCCGTCTCTAAT.................. 17 30 5 .........................TGAGCAACATAGCGAGACCCCGTCTCTAAA.................. 1 30 5 .........................TGAGCAACATAGCGAGACCCCGTCT....................... 21 25 11 .........................TGAGCAACATAGCGAGACCCCGTCTCTAA................... 28 29 5 .........................TGAGCAACATAGCGAGACCCCGTCTC...................... 35 26 9 .........................TGAGCAACATAGCGAGA............................... 46 17 251 .........................TGAGCAACATAGCGAGAC.............................. 66 18 194 ..........................GAGCAACATAGCGAGACCCCGTCTCTAA................... 11 28 1 ..........................GAGCAACATAGCGAGACCCCG.......................... 15 21 14 ..........................GAGCAACATAGCGAGACCCCGTCTCTAATC................. 1 30 1 ..........................GAGCAACATAGCGAGACCC............................ 28 19 119 ..........................GAGCAACATAGCGAGACCCCGTCTCTAATA................. 2 30 1 ..........................GAGCAACATAGCGAGACCCCGTCTCTA.................... 455 27 7 ..........................GAGCAACATAGCGAGACCCCGTCTCTAAT.................. 6 29 1 ...........................AGCAACATAGCGAGACCCC........................... 15 19 85 ...........................AGCAACATAGCGAGACCCCGTCTCTA.................... 179 26 7 ...........................AGCAACATAGCGAGACC............................. 22 17 212 ...........................AGCAACATAGCGAGACCCCGTCTCTAA................... 4 27 1 ...........................AGCAACATAGCGAGACCCCGTCTCT..................... 66 25 8 ............................GCAACATAGCGAGACCCCGTCTCTA.................... 293 25 51 ............................GCAACATAGCGAGACCCCGTCTCTAA................... 3 26 9 ............................GCAACATAGCGAGACCCCGTCTCT..................... 96 24 57 .............................CAACATAGCGAGACCCCGTCT....................... 13 21 87 .............................CAACATAGCGAGACCCCGTCTCTA.................... 367 24 63 .............................CAACATAGCGAGACCCCGTCTCTAA................... 7 25 9 ..............................AACATAGCGAGACCCCGTCTCT..................... 240 22 80 ..............................AACATAGCGAGACCCCG.......................... 53 17 137 ..............................AACATAGCGAGACCCCGTCTCTAA................... 7 24 10 ...............................ACATAGCGAGACCCCGTCTCTAAA.................. 2 24 12 ...............................ACATAGCGAGACCCCGTCTCTAA................... 4 23 13 ...............................ACATAGCGAGACCCCGTCTC...................... 6 20 92 ................................CATAGCGAGACCCCGTCTC...................... 7 19 97 ................................CATAGCGAGACCCCGTCTCT..................... 87 20 89 .................................ATAGCGAGACCCCGTCT....................... 11 17 130 .................................ATAGCGAGACCCCGTCTCT..................... 295 19 106 .................................ATAGCGAGACCCCGTCTCTA.................... 412 20 94 .................................ATAGCGAGACCCCGTCTCTAA................... 6 21 15 ..................................TAGCGAGACCCCGTCTCT..................... 103 18 113 ..................................TAGCGAGACCCCGTCTCTA.................... 636 19 99 ..................................TAGCGAGACCCCGTCTCTAA................... 7 20 17 ...................................AGCGAGACCCCGTCTCTAAA.................. 1 20 38 ...................................AGCGAGACCCCGTCTCTAA................... 7 19 43 ....................................GCGAGACCCCGTCTCTAAA.................. 1 19 41 ....................................GCGAGACCCCGTCTCTAA................... 3 18 47 .....................................CGAGACCCCGTCTCTAA................... 1 17 53 negative .....GGTCCTCAACCTCTAGT................................................... 1 17 228 ....................GTCGGACTCGTTGTATC.................................... 1 17 3123 ......................CGGACTCGTTGTATCGCTCTGGG............................ 2 23 81 .......................................TCTGGGGCAGAGATTTT................. 1 17 305 >chr17_2578872_2578940_+_piRNA-associated-siRNA GAUCACUUGAGCCCAGGAGUUUGAGCAACAUAGCGAGACCCCGUCUCUACAGAAAACUUUUUUUUUUUU .....((..(((......)))..)).........(((((...)))))...................... ( -9.50) GATCACTTGAGCCCAGGAGT................................................. 2 20 16196 GATCACTTGAGCCCAGGA................................................... 3 18 26280 GATCACTTGAGCCCAGGAG.................................................. 4 19 22817 GATCACTTGAGCCCAGG.................................................... 5 17 27926 GATCACTTGAGCCCAGGAGTT................................................ 7 21 15543 .ATCACTTGAGCCCAGGAGTTTGAG............................................ 1 24 5504 .ATCACTTGAGCCCAGGAGTTTG.............................................. 1 22 6364 .ATCACTTGAGCCCAGGAG.................................................. 2 18 26911 .ATCACTTGAGCCCAGGAGT................................................. 2 19 18326 .ATCACTTGAGCCCAGGAGTTTGA............................................. 2 23 6075 .ATCACTTGAGCCCAGGA................................................... 2 17 31013 ..TCACTTGAGCCCAGGAGTT................................................ 1 19 18613 ..TCACTTGAGCCCAGGAGTTTGAG............................................ 1 23 5837 ..TCACTTGAGCCCAGGAGT................................................. 4 18 19384 ..TCACTTGAGCCCAGGAG.................................................. 9 17 28422 ...CACTTGAGCCCAGGAGTT................................................ 6 18 19593 ...CACTTGAGCCCAGGAGTTT............................................... 6 19 7936 ...CACTTGAGCCCAGGAGT................................................. 9 17 20405 ....ACTTGAGCCCAGGAGTTTGAG............................................ 1 21 6873 ....ACTTGAGCCCAGGAGTTTGA............................................. 1 20 7608 ....ACTTGAGCCCAGGAGTTTG.............................................. 1 19 7982 .....CTTGAGCCCAGGAGTTTGA............................................. 1 19 20180 .....CTTGAGCCCAGGAGTTTG.............................................. 2 18 21075 .....CTTGAGCCCAGGAGTTTGAG............................................ 3 20 18328 .....CTTGAGCCCAGGAGTTT............................................... 3 17 23577 ......TTGAGCCCAGGAGTTTGAG............................................ 2 19 20400 ............CCAGGAGTTTGAGCAACA....................................... 1 18 14 ....................TTGAGCAACATAGCGAGACCC............................ 1 21 9 ....................TTGAGCAACATAGCGAGACC............................. 1 20 12 ....................TTGAGCAACATAGCGAGACCCCGTCTCTTA................... 2 30 2 ....................TTGAGCAACATAGCGAGACCCCGTCTCTT.................... 2 29 2 .....................TGAGCAACATAGCGAGACCCCGTCTCTA.................... 1591 28 7 .....................TGAGCAACATAGCGAGACCCC........................... 163 21 61 .....................TGAGCAACATAGCGAGACCCCGTCTCTATT.................. 3 30 6 .....................TGAGCAACATAGCGAGACCCCGTCTCT..................... 479 27 8 ......................GAGCAACATAGCGAGAC.............................. 14 17 200 ......................GAGCAACATAGCGAGACCCCGTCTCT..................... 65 26 8 .......................AGCAACATAGCGAGACCCCGTCTC...................... 1 24 9 .......................AGCAACATAGCGAGACCCCGTCT....................... 5 23 12 .......................AGCAACATAGCGAGACCCCGT......................... 5 21 14 ........................GCAACATAGCGAGACCCCGTC........................ 7 21 78 ........................GCAACATAGCGAGACCCC........................... 9 18 846 .........................CAACATAGCGAGACCCCGTCTCTAC................... 1 25 42 .........................CAACATAGCGAGACCCCGTC........................ 21 20 92 .........................CAACATAGCGAGACCCCGT......................... 35 19 108 .........................CAACATAGCGAGACCCCGTCTC...................... 7 22 76 ..........................AACATAGCGAGACCCCGTCTCTA.................... 699 23 73 ..........................AACATAGCGAGACCCCGTCTC...................... 6 21 86 ...........................ACATAGCGAGACCCCGTCT....................... 30 19 105 .............................ATAGCGAGACCCCGTCTC...................... 5 18 116 ..............................TAGCGAGACCCCGTCTCTAC................... 1 20 62 ..............................TAGCGAGACCCCGTCTC...................... 5 17 124 ...............................AGCGAGACCCCGTCTCT..................... 125 17 192 negative CTAGTGAACTCGGGTCCTC.................................................. 16 19 22817 CTAGTGAACTCGGGTCCTCAAA............................................... 1 22 6262 CTAGTGAACTCGGGTCCTCAA................................................ 2 21 15543 CTAGTGAACTCGGGTCCTCAAACTC............................................ 2 25 4866 CTAGTGAACTCGGGTCCT................................................... 2 18 26280 CTAGTGAACTCGGGTCCTCAAAC.............................................. 3 23 5611 CTAGTGAACTCGGGTCC.................................................... 5 17 27926 CTAGTGAACTCGGGTCCTCA................................................. 6 20 16196 .TAGTGAACTCGGGTCCTC.................................................. 11 18 26911 .TAGTGAACTCGGGTCCT................................................... 6 17 31013 ..AGTGAACTCGGGTCCTCAA................................................ 1 19 18613 ..AGTGAACTCGGGTCCTC.................................................. 20 17 28422 ..AGTGAACTCGGGTCCTCAAACTC............................................ 3 23 5837 ..AGTGAACTCGGGTCCTCA................................................. 8 18 19384 ...GTGAACTCGGGTCCTCA................................................. 15 17 20405 ...GTGAACTCGGGTCCTCAAAC.............................................. 1 20 7091 ...GTGAACTCGGGTCCTCAAACTC............................................ 1 22 6120 ...GTGAACTCGGGTCCTCAAACT............................................. 2 21 6768 ...GTGAACTCGGGTCCTCAA................................................ 3 18 19593 .....GAACTCGGGTCCTCAAA............................................... 1 17 23577 .....GAACTCGGGTCCTCAAACT............................................. 1 19 20180 .....GAACTCGGGTCCTCAAAC.............................................. 3 18 21075 ......AACTCGGGTCCTCAAACTC............................................ 2 19 20400 .......ACTCGGGTCCTCAAACT............................................. 2 17 24274 .......ACTCGGGTCCTCAAACTC............................................ 6 18 22023 ........CTCGGGTCCTCAAACTC............................................ 1 17 23220 .....................................TGGGGCAGAGATGTCTTTT............. 1 19 162 ......................................GGGGCAGAGATGTCTTT.............. 1 17 219