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["Table S2 Summary for clean reads mapping to the Oryza sativa Nipponbare reference genomeclean reads"]
["#SampleID","Total Reads","Mapped Reads","Uniq Mapped Reads","Multiple Map Reads","Reads Map to '+'","Reads Map to '-'"]
["SS0-1",61032380,"56,105,783 (91.93%)","54,699,775 (89.62%)","1,406,008 (2.30%)","27,936,617 (45.77%)","28,009,248 (45.89%)"]
["SS0-2",60849576,"55,350,576 (90.96%)","54,041,915 (88.81%)","1,308,661 (2.15%)","27,562,182 (45.30%)","27,643,693 (45.43%)"]
["SS0-3",64262326,"58,777,146 (91.46%)","57,347,058 (89.24%)","1,430,088 (2.23%)","29,263,755 (45.54%)","29,347,425 (45.67%)"]
["SS12-1",56805528,"52,313,431 (92.09%)","51,116,316 (89.98%)","1,197,115 (2.11%)","26,051,994 (45.86%)","26,111,939 (45.97%)"]
["SS12-2",63877892,"58,110,586 (90.97%)","56,769,342 (88.87%)","1,341,244 (2.10%)","28,939,345 (45.30%)","29,015,848 (45.42%)"]
["SS12-3",56407704,"52,019,346 (92.22%)","50,927,537 (90.28%)","1,091,809 (1.94%)","25,909,769 (45.93%)","25,970,483 (46.04%)"]
["SS24-1",71622668,"65,458,586 (91.39%)","63,896,223 (89.21%)","1,562,363 (2.18%)","32,610,187 (45.53%)","32,675,557 (45.62%)"]
["SS24-2",70981784,"64,081,870 (90.28%)","62,596,375 (88.19%)","1,485,495 (2.09%)","31,936,847 (44.99%)","32,012,898 (45.10%)"]
["SS24-3",69328564,"63,232,136 (91.21%)","61,693,171 (88.99%)","1,538,965 (2.22%)","31,479,007 (45.41%)","31,556,109 (45.52%)"]
["SS36-1",66869032,"59,083,302 (88.36%)","56,653,426 (84.72%)","2,429,876 (3.63%)","29,361,167 (43.91%)","29,466,275 (44.07%)"]
["SS36-2",57289480,"52,494,613 (91.63%)","50,920,901 (88.88%)","1,573,712 (2.75%)","26,127,974 (45.61%)","26,201,868 (45.74%)"]
["SS36-3",64749454,"57,438,892 (88.71%)","55,383,686 (85.54%)","2,055,206 (3.17%)","28,539,267 (44.08%)","28,660,309 (44.26%)"]
["SS48-1",54253596,"49,693,632 (91.60%)","48,364,374 (89.15%)","1,329,258 (2.45%)","24,743,600 (45.61%)","24,797,325 (45.71%)"]
["SS48-2",67603276,"60,090,707 (88.89%)","58,754,034 (86.91%)","1,336,673 (1.98%)","29,944,695 (44.29%)","29,995,208 (44.37%)"]
["SS48-3",75633358,"68,540,316 (90.62%)","66,849,974 (88.39%)","1,690,342 (2.23%)","34,137,054 (45.13%)","34,208,985 (45.23%)"]
["SS72-1",63227008,"56,862,206 (89.93%)","55,500,485 (87.78%)","1,361,721 (2.15%)","28,334,675 (44.81%)","28,390,060 (44.90%)"]
["SS72-2",63984004,"58,591,046 (91.57%)","57,316,137 (89.58%)","1,274,909 (1.99%)","29,194,505 (45.63%)","29,255,927 (45.72%)"]
["SS72-3",76141966,"66,491,981 (87.33%)","64,944,575 (85.29%)","1,547,406 (2.03%)","33,155,517 (43.54%)","33,192,615 (43.59%)"]
["YY0-1",68044676,"62,537,730 (91.91%)","61,107,326 (89.80%)","1,430,404 (2.10%)","31,171,784 (45.81%)","31,213,433 (45.87%)"]
["YY0-2",71009180,"65,151,349 (91.75%)","61,811,175 (87.05%)","3,340,174 (4.70%)","32,357,737 (45.57%)","32,473,429 (45.73%)"]
["YY0-3",67042902,"61,249,870 (91.36%)","59,863,141 (89.29%)","1,386,729 (2.07%)","30,511,732 (45.51%)","30,569,848 (45.60%)"]
["YY12-1",72135736,"64,081,311 (88.83%)","62,540,192 (86.70%)","1,541,119 (2.14%)","31,915,043 (44.24%)","31,964,240 (44.31%)"]
["YY12-2",59050276,"53,620,495 (90.80%)","52,032,133 (88.11%)","1,588,362 (2.69%)","26,689,006 (45.20%)","26,748,601 (45.30%)"]
["YY12-3",68850088,"63,376,743 (92.05%)","61,878,426 (89.87%)","1,498,317 (2.18%)","31,580,138 (45.87%)","31,624,730 (45.93%)"]
["YY24-1",58147778,"53,686,244 (92.33%)","52,386,738 (90.09%)","1,299,506 (2.23%)","26,738,897 (45.98%)","26,779,586 (46.05%)"]
["YY24-2",57093760,"51,117,392 (89.53%)","49,614,018 (86.90%)","1,503,374 (2.63%)","25,431,200 (44.54%)","25,464,779 (44.60%)"]
["YY24-3",57095122,"52,474,239 (91.91%)","50,889,834 (89.13%)","1,584,405 (2.78%)","26,135,191 (45.77%)","26,167,383 (45.83%)"]
["YY36-1",66000984,"59,034,729 (89.45%)","57,451,396 (87.05%)","1,583,333 (2.40%)","29,428,762 (44.59%)","29,457,427 (44.63%)"]
["YY36-2",67581124,"58,890,716 (87.14%)","57,204,657 (84.65%)","1,686,059 (2.49%)","29,360,032 (43.44%)","29,387,664 (43.49%)"]
["YY36-3",57244754,"46,041,327 (80.43%)","44,912,770 (78.46%)","1,128,557 (1.97%)","22,959,138 (40.11%)","22,980,161 (40.14%)"]
["YY48-1",63603740,"56,082,694 (88.18%)","54,280,962 (85.34%)","1,801,732 (2.83%)","27,918,325 (43.89%)","27,936,788 (43.92%)"]
["YY48-2",65214064,"57,318,449 (87.89%)","55,682,669 (85.38%)","1,635,780 (2.51%)","28,591,432 (43.84%)","28,611,735 (43.87%)"]
["YY48-3",54553962,"49,185,786 (90.16%)","47,845,039 (87.70%)","1,340,747 (2.46%)","24,522,306 (44.95%)","24,547,593 (45.00%)"]
["YY72-1",54410806,"48,213,064 (88.61%)","47,039,493 (86.45%)","1,173,571 (2.16%)","24,036,754 (44.18%)","24,068,667 (44.24%)"]
["YY72-2",64655710,"54,718,964 (84.63%)","53,363,917 (82.54%)","1,355,047 (2.10%)","27,297,436 (42.22%)","27,298,780 (42.22%)"]
["YY72-3",58213746,"53,086,383 (91.19%)","51,863,581 (89.09%)","1,222,802 (2.10%)","26,486,007 (45.50%)","26,497,428 (45.52%)"]