EricChu:LabNotesMDA/2014-8-25

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PGP1 21 Combined CoRE and Tag Reads (mapped by BWA)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique 1+ 1 2 3 4+ contig
25 8,915 30.67% 2,734 1.13% 2,703 129431 127599 921 66 695 0
1 1,767,726 74.59% 1,318,562 55.73% 583,727 9516093 5692190 1230581 626839 1965634 218
2 2,600,727 82.44% 2,143,913 55.31% 958,115 10846262 6082060 1213949 640543 2900424 321
3 2,166,722 75.21% 1,629,621 50.70% 803,403 9026307 4990213 1012535 533179 2484844 299
4 2,982,718 81.90% 2,442,744 51.83% 1,176,670 13628682 8211575 1393897 676569 3340779 341
5 2,985,776 78.28% 2,337,121 49.13% 1,188,893 12998138 7214372 1415290 747580 3619125 389
6 4,794,307 84.40% 4,046,302 60.66% 1,591,815 16517249 9582723 1686003 842768 4400376 443
7 2,875,956 72.92% 2,097,091 49.00% 1,069,516 12972372 6903851 1650877 879066 3533693 389
8 2,882,183 78.40% 2,259,734 40.67% 1,340,700 17241147 9578019 2195105 1139208 4321040 487
9 2,973,394 84.98% 2,526,707 35.87% 1,620,377 20867654 10813806 2862995 1540997 5640480 775
10 2,167,476 77.03% 1,669,648 30.19% 1,165,581 18640056 9981373 2888407 1482285 4278796 591
11 2,137,080 81.27% 1,736,911 37.14% 1,091,822 20917290 12273611 3154542 1551941 3927547 633
12 4,553,703 87.66% 3,991,612 13.50% 3,452,744 67452229 34571848 12154514 6502810 14206613 3151
13 3,197,307 68.98% 2,205,348 13.50% 1,907,626 53586423 34648595 9749094 4047238 5126604 2131
14 3,931,535 89.05% 3,500,954 11.01% 3,115,499 74902025 43560883 13922451 6635791 10767573 3442
15 3,372,990 70.22% 2,368,534 16.55% 1,976,542 58662869 38491396 10903238 4382136 4871109 2284
16 3,264,362 79.82% 2,605,704 10.80% 2,324,288 74432147 52049786 12877420 4769835 4723437 2293
17 3,496,240 77.57% 2,711,982 15.77% 2,284,302 74071152 52407506 12878522 4583367 4187083 2170
18 3,017,219 81.47% 2,458,031 11.25% 2,181,503 64755388 42915926 11790071 4687801 5346162 2471
19 1,402,425 92.07% 1,291,258 5.86% 1,215,590 43381886 32591056 6837623 2191031 1749037 947
20 3,720,498 83.96% 3,123,552 16.56% 2,606,292 66777895 41039684 12050112 5461023 8211943 2787
21 3,298,736 88.73% 2,926,946 12.84% 2,551,126 67473637 42974264 11765137 5143403 7574981 2694
22 4,405,230 90.49% 3,986,500 12.00% 3,508,120 77232990 43439158 13826921 6860909 13089956 3770
23 1,718,252 78.28% 1,344,992 20.32% 1,071,690 33514168 23733165 5446737 2025667 2296236 994
24 4,153,367 83.96% 3,487,330 16.59% 2,908,782 68349048 39717105 12252959 5937268 10425575 3517
73,874,844 81.50% 60,213,831 27.76% 43,697,428 37537

PGP1 22 Combined Simplified and Tag Reads (mapped by BWA)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique 1+ 1 2 3 4+ contig
25 1,014,446 89.82% 911,158 0.96% 902,411 42,007,823 39,361,716 2,142,641 338,443 160,432 104
1 1,721,573 76.75% 1,321,337 20.42% 1,051,520 26,956,965 19,051,494 3,293,984 1,411,110 3,197,334 512
2 1,393,623 78.75% 1,097,511 24.89% 824,341 19,914,102 13,790,175 2,354,223 1,067,455 2,694,387 538
3 1,214,890 16.75% 203,469 16.10% 170,710 4,795,763 3,374,611 633,185 276,101 510,241 103
4 3,249,097 74.90% 2,433,488 42.20% 1,406,556 21,453,982 12,382,109 2,617,083 1,339,660 5,108,391 813
5 2,452,694 54.75% 1,342,758 43.41% 759,867 15,253,924 9,950,700 1,802,084 868,142 2,625,918 427
6 3,942,205 74.05% 2,919,107 45.80% 1,582,156 23,982,090 14,367,384 2,717,722 1,358,064 5,530,237 863
7 3,487,723 78.87% 2,750,913 39.87% 1,654,124 25,511,841 14,450,825 3,317,927 1,661,491 6,075,289 1031
8 2,404,304 84.55% 2,032,896 15.63% 1,715,154 40,702,300 24,475,918 6,767,943 3,183,182 6,266,812 1577
9 2,401,126 83.10% 1,995,326 15.63% 1,683,457 36,503,127 20,048,241 6,286,353 3,251,678 6,900,584 1422
10 574,906 85.77% 493,106 9.05% 448,480 12,842,508 8,994,652 1,854,628 720,982 1,264,979 293
11 1,431,850 76.01% 1,088,404 17.70% 895,756 22,304,961 14,479,148 3,354,659 1,458,058 2,998,419 584
12 3,739,082 78.86% 2,948,590 29.67% 2,073,743 37,924,722 21,551,076 5,745,717 2,839,631 7,773,491 1367
13 2,149,038 83.52% 1,794,982 11.47% 1,589,098 42,816,684 26,876,392 7,267,967 3,307,014 5,351,301 1444
14 900,164 72.81% 655,410 10.33% 587,706 19,140,058 14,646,725 2,395,761 809,554 1,275,945 291
15 1,792,737 82.55% 1,479,862 23.61% 1,130,467 23,386,851 14,283,418 3,391,849 1,534,792 4,162,573 631
16 1,661,017 82.10% 1,363,654 8.73% 1,244,607 35,717,554 23,412,821 5,965,297 2,562,005 3,761,684 1090
17 3,867,925 81.19% 3,140,423 22.89% 2,421,580 55,923,111 36,224,492 8,385,727 3,587,365 7,709,229 1637
18 2,417,798 77.27% 1,868,138 15.18% 1,584,555 37,211,161 22,222,683 6,118,456 2,927,473 5,926,351 1267
19 1,750,911 76.70% 1,342,934 20.50% 1,067,633 27,150,915 17,680,402 4,334,702 1,846,382 3,273,962 915
20 5,714,105 77.00% 4,399,962 27.69% 3,181,613 70,042,421 45,315,865 9,478,137 4,323,910 10,907,983 1905
21 1,969,271 79.82% 1,571,794 12.67% 1,372,648 34,767,438 20,991,038 5,950,750 2,856,329 4,953,514 1308
22 1,800,697 82.96% 1,493,816 16.43% 1,248,382 33,614,515 22,084,346 5,146,470 2,329,712 4,037,882 1156
23 888,208 69.63% 618,445 8.60% 565,259 17,936,086 12,900,500 2,542,565 1,052,910 1,425,040 501
24 1,589,080 86.10% 1,368,126 7.45% 1,266,201 37,663,022 25,615,733 6,062,029 2,545,006 3,425,221 1241
55,528,470 76.78% 42,635,609 0.243894032 23026

PGP1 23 Device V8 5min Incubation + 5min Pump (instead of 10min pump) with Simplified Tag (mapped by BWA)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique 1+ 1 2 3 4+ contig
25 390,006 76.46% 298,208 19.78% 239,222 7,489,203 4,894,180 1,385,612 490,980 713,755 108
1 2,659,539 83.08% 2,209,639 68.80% 689,407 10,215,316 6,323,889 1,192,133 508,564 2,189,316 237
2 727,413 84.81% 616,910 50.99% 302,348 6,944,381 4,641,825 1,081,690 292,160 926,611 103
3 521,423 88.41% 461,015 24.38% 348,620 10,988,404 7,439,409 1,948,035 616,985 975,599 196
4 525,708 87.83% 461,722 26.72% 338,350 10,973,235 7,122,683 2,186,736 662,365 993,915 185
5 1,700,163 82.25% 1,398,437 25.37% 1,043,654 32,861,572 22,484,596 5,805,589 1,679,607 2,878,622 579
6 1,107,542 87.84% 972,830 32.98% 651,991 16,436,441 9,150,974 3,251,616 1,268,754 2,752,930 523
7 427,288 87.25% 372,800 19.48% 300,179 11,615,241 8,570,940 2,122,883 434,522 481,619 66
8 2,584,602 88.64% 2,291,090 41.08% 1,349,910 28,798,510 15,619,951 4,994,143 2,123,651 6,046,375 1129
9 8,180,400 85.99% 7,034,677 32.43% 4,753,331 121,509,729 69,122,660 24,492,005 9,368,317 18,510,607 3456
10 404,400 83.99% 339,654 34.66% 221,930 7,760,462 5,112,640 1,666,236 439,459 534,630 71
11 998,664 90.16% 900,378 29.85% 631,615 16,598,420 9,966,845 2,988,858 1,238,997 2,394,799 564
12 668,384 89.85% 600,517 27.41% 435,915 13,216,397 7,977,879 2,754,209 946,845 1,528,978 287
13 941,089 83.01% 781,226 24.63% 588,810 17,251,261 10,357,161 3,493,552 1,277,657 2,115,129 425
14 845,880 87.41% 739,366 25.34% 552,011 15,217,472 9,419,365 2,775,760 1,087,924 1,922,064 389
15 1,076,847 86.73% 933,979 27.65% 675,734 19,058,713 12,003,172 3,363,353 1,295,367 2,388,385 455
16 3,014,868 87.74% 2,645,176 36.71% 1,674,132 34,422,449 19,592,176 5,511,154 2,455,845 6,847,834 1237
17 2,698,774 89.26% 2,408,808 33.73% 1,596,317 34,399,231 19,620,188 5,548,784 2,522,603 6,694,835 1113
18 1,105,299 87.76% 970,032 25.47% 722,965 21,725,473 14,343,768 3,789,616 1,318,271 2,261,808 435
19 1,397,539 87.53% 1,223,256 27.54% 886,371 22,667,350 13,420,963 4,044,354 1,654,389 3,535,910 713
20 2,017,225 89.65% 1,808,414 28.25% 1,297,537 41,916,943 28,711,133 7,523,306 2,213,918 3,453,860 685
21 3,095,545 89.04% 2,756,401 30.84% 1,906,327 45,754,077 27,486,317 7,756,429 3,078,720 7,416,737 1556
22 3,334,210 89.28% 2,976,897 31.61% 2,035,900 59,238,516 37,021,927 12,163,660 3,461,182 6,576,644 1260
23 3,992,688 90.34% 3,607,191 39.49% 2,182,711 46,879,680 28,760,337 7,287,374 2,780,214 8,035,223 1492
24 1,096,669 89.15% 977,706 56.73% 423,053 7,537,136 5,042,783 873,363 360,918 1,258,672 176
45,512,165 87.42% 39,786,329 0.350808152 17440

PGP1 24 Device V8 Random 8-mer Simplified Tag (mapped by BWA)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique 1+ 1 2 3 4+ contig
1 1640076 95.86% 1572110 23.70% 1,199,520 21981168 10833773 3586672 1983134 5566369 804
2 1340818 95.77% 1284162 13.60% 1,109,516 26878170 14846041 4999405 2504898 4511311 1206
3 1714130 96.38% 1652070 18.07% 1,353,541 29351675 16037131 5006442 2542811 5748756 1383
4 1675286 96.03% 1608742 19.46% 1,295,681 25392163 12842259 4284882 2329807 5918879 1187
5 2011370 95.69% 1924708 21.85% 1,504,159 28380830 14133749 4720764 2587161 6922616 1327
6 1632231 91.70% 1496836 21.74% 1,171,424 22255355 11267675 3718429 2003514 5250643 1082
7 2010717 95.96% 1929506 27.10% 1,406,610 22903223 10893768 3379772 1936197 6677816 1058
8 2216786 96.19% 2132279 15.90% 1,793,247 40572299 21744432 7303293 3772678 7735989 1806
9 1094654 96.98% 1061620 19.77% 851,738 21817547 14231060 3456982 1427346 2686762 741
10 1096361 96.44% 1057340 19.88% 847,141 21156073 13555741 3336781 1415793 2831203 756
11 1075544 96.86% 1041760 23.30% 799,030 18986625 11799379 3099265 1338004 2733617 709
12 1316826 96.86% 1275469 31.36% 875,482 19801901 12226333 3289857 1438165 2831979 806
13 1343854 96.37% 1295056 24.23% 981,264 22602977 13944466 3678119 1609733 3354090 901
14 1288277 96.57% 1244036 30.19% 868,462 19602494 12368556 3022251 1301830 2893879 771
15 1572440 95.57% 1502812 32.18% 1,019,207 22486162 13952547 3544203 1527498 3445845 889
16 1477916 96.97% 1433068 28.98% 1,017,765 23493259 14912324 3707302 1564398 3292831 858
17 1612105 96.27% 1551932 13.14% 1,348,008 35924685 22001492 6346556 2850192 4709919 1593
18 1114338 95.41% 1063188 9.17% 965,694 29830442 20323479 4902495 1982092 2605856 1134
19 1739110 96.24% 1673768 13.44% 1,448,814 37374913 22359095 6627724 3068474 5303082 1856
20 1937720 95.90% 1858214 13.76% 1,602,524 42209334 26860849 6734502 2999877 5597561 1777
21 3138051 96.40% 3025212 12.04% 2,660,976 75671146 50186704 12176283 5048131 8243493 2999
22 2220512 95.72% 2125468 13.38% 1,841,080 48501173 29550492 8619506 3857800 6456863 2362
23 2698960 95.70% 2582802 19.60% 2,076,573 42819488 22664347 7286868 3795462 9056286 2501
24 63146 96.23% 60766 2.52% 59,235 2806948 2610635 164089 20234 6945 1
39031228 96.00% 37452924 0.196386061 30,096,689 30507

PGP1 25 Device V8 Random 9-mer Combined Simplified and Tag Reads (mapped by BWA)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique 1+ 1 2 3 4+ contig
1 2,184,291 97.10% 2,120,990 22.11% 1,652,039 31,986,378 18,232,069 4,734,194 2,355,190 6,658,943 788
2 2,499,709 96.74% 2,418,339 26.33% 1,781,590 35,636,576 22,425,584 4,707,619 2,140,726 6,353,419 782
3 2,493,052 96.91% 2,416,100 25.47% 1,800,719 39,636,619 26,273,842 5,178,322 2,199,214 5,972,929 799
4 2,282,055 96.54% 2,203,111 27.41% 1,599,238 30,211,006 18,461,426 3,979,706 1,852,751 5,905,061 741
5 1,741,480 96.36% 1,678,023 23.41% 1,285,198 30,550,974 20,731,298 4,141,377 1,707,914 3,959,700 675
6 1,513,290 96.45% 1,459,504 23.85% 1,111,412 22,320,418 13,654,657 3,107,903 1,456,327 4,097,034 561
7 4,195,597 97.25% 4,080,055 29.98% 2,856,855 54,798,794 32,503,456 7,964,290 3,658,513 10,659,124 1363
8 1,147,030 96.04% 1,101,583 23.61% 841,499 15,193,645 8,583,803 2,159,621 1,117,557 3,327,824 440
9 1,995,481 96.63% 1,928,196 30.95% 1,331,419 22,749,515 13,207,834 3,098,844 1,511,914 4,923,075 543
10 2,317,908 97.01% 2,248,522 43.25% 1,276,036 16,413,864 8,881,713 2,033,889 1,048,444 4,441,895 435
11 2,070,348 95.40% 1,975,128 20.00% 1,580,102 34,827,621 21,483,010 5,197,168 2,369,989 5,774,483 906
12 1,481,367 95.63% 1,416,639 31.16% 975,214 15,051,833 8,138,743 2,063,584 1,071,142 3,774,004 440
13 1,092,801 96.79% 1,057,744 24.52% 798,385 14,797,509 8,274,996 2,315,300 1,191,540 3,014,347 433
14 912,307 96.49% 880,282 21.06% 694,895 12,543,654 6,997,807 1,762,223 934,775 2,844,234 392
15 2,433,854 96.21% 2,341,514 35.46% 1,511,213 22,980,808 12,453,974 3,019,964 1,558,760 5,933,848 610
16 1,022,561 96.52% 986,983 12.00% 868,545 21,251,937 13,076,239 3,467,264 1,606,037 3,101,750 619
17 1,121,374 96.81% 1,085,658 36.95% 684,507 11,128,413 6,543,958 1,449,179 723,509 2,408,399 322
18 1,986,108 97.05% 1,927,481 30.35% 1,342,491 27,438,155 18,259,396 3,473,613 1,439,458 4,261,360 590
19 2,302,925 97.19% 2,238,241 40.34% 1,335,335 20,079,043 11,386,392 2,563,472 1,296,522 4,816,482 493
20 2,302,136 96.67% 2,225,362 22.40% 1,726,881 39,063,557 26,082,919 5,242,624 2,174,525 5,553,666 818
21 1,300,810 96.35% 1,253,315 27.20% 912,413 19,754,539 13,720,482 2,265,691 924,804 2,836,642 352
22 1,320,415 96.93% 1,279,878 24.26% 969,380 22,530,006 15,532,204 2,742,149 1,161,541 3,086,644 432
23 4,038,941 97.18% 3,925,079 38.16% 2,427,269 50,797,424 33,453,499 7,069,956 2,871,948 7,391,188 1109
24 1,359,113 96.09% 1,305,981 24.20% 989,934 18,056,452 10,532,393 2,488,816 1,225,086 3,798,095 431
47,114,953 96.69% 45,553,708 0.289644616 32,352,570 15074

PGP1 26 Device V8 Random 10-mer Simplified Tag (mapped by BWA)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique contig 1+ 1 2 3 4+ contig
1 690,277 96.70% 667,502 44.81% 368,394 162 5,636,948 3,220,301 681,567 355,998 1,371,366 162
2 573,767 96.32% 552,669 31.63% 377,860 217 6,165,818 3,264,608 816,265 450,841 1,625,894 217
3 764,141 96.41% 736,674 41.70% 429,481 215 6,452,790 3,395,150 831,767 458,764 1,752,274 215
4 572,351 95.85% 548,627 32.58% 369,884 203 6,030,417 3,250,837 788,447 429,731 1,545,798 203
5 688,067 95.85% 659,504 41.75% 384,161 161 5,653,088 3,240,852 658,088 335,507 1,409,822 161
6 619,413 96.31% 596,537 40.45% 355,238 174 4,988,329 2,650,568 594,056 328,050 1,402,879 174
7 746,320 96.07% 716,961 41.30% 420,856 214 6,313,822 3,382,543 791,438 434,916 1,690,622 214
8 740,681 96.48% 714,629 46.52% 382,184 175 6,122,312 3,677,066 722,628 356,090 1,353,567 175
9 796,267 96.19% 765,943 51.37% 372,478 181 5,623,958 3,090,982 712,580 380,280 1,430,482 181
10 824,214 96.26% 793,363 39.86% 477,129 174 6,413,486 3,268,950 754,872 423,993 1,953,599 174
11 907,032 96.74% 877,441 46.38% 470,484 187 6,571,047 3,397,058 820,126 446,728 1,903,087 187
12 723,182 96.72% 699,459 44.51% 388,130 185 5,842,914 3,093,034 780,119 427,748 1,532,426 185
13 757,465 96.54% 731,244 37.24% 458,929 227 7,078,124 3,777,507 924,935 498,188 1,863,922 227
14 704,605 96.63% 680,867 32.90% 456,862 232 7,225,566 3,886,003 942,941 506,321 1,882,708 232
15 848,248 96.18% 815,834 38.26% 503,696 236 7,942,109 4,361,859 998,320 540,109 2,036,434 236
16 671,708 96.57% 648,695 35.82% 416,332 206 6,196,604 3,224,629 806,557 443,002 1,710,215 206
17 674,292 94.37% 636,303 24.29% 481,745 272 9,489,870 5,467,445 1,330,773 685,117 1,993,825 272
18 719,253 96.53% 694,276 26.01% 513,695 297 9,343,787 5,254,577 1,259,271 651,657 2,166,764 297
19 710,519 96.55% 685,974 32.20% 465,090 237 7,490,712 4,013,960 963,650 541,520 1,956,549 237
20 616,598 96.21% 593,224 30.58% 411,816 240 6,896,372 3,880,733 869,639 465,347 1,674,485 240
21 537,817 96.28% 517,799 30.32% 360,802 246 6,522,265 3,491,940 969,645 525,126 1,521,163 246
22 555,866 95.99% 533,555 28.61% 380,905 264 6,469,170 3,589,897 844,288 449,894 1,574,465 264
23 757,629 96.13% 728,324 32.25% 493,440 284 8,665,874 5,040,136 1,105,371 568,271 1,937,579 284
24 927,550 96.79% 897,816 38.55% 551,708 280 8,264,275 4,557,481 1,007,562 531,964 2,154,889 280
17,127,262 96.30% 16,493,220 0.375887603 10,291,298 5269 5269

PGP1 26 Device V8 Random 10-mer Simplified Tag (mapped by Bowtie2)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique contig 1+ 1 2 3 4+ contig %Mito
1 690,277 99.35% 685,798 39.48% 415,045 162 5,839,447 3,375,697 708,870 360,464 1,386,445 162 0.03%
2 573,767 99.42% 570,427 26.51% 419,207 220 6,375,239 3,448,254 827,457 452,689 1,638,490 220 0.07%
3 764,141 99.45% 759,906 36.53% 482,312 214 6,713,978 3,607,242 856,516 466,413 1,768,838 214 0.17%
4 572,351 99.19% 567,740 27.78% 410,022 203 6,223,838 3,398,581 812,009 432,905 1,564,592 203 0.33%
5 688,067 99.32% 683,379 36.27% 435,517 161 5,906,220 3,437,517 686,533 343,575 1,429,864 161 0.05%
6 619,413 99.47% 616,108 35.41% 397,944 175 5,189,574 2,822,230 608,976 329,729 1,415,507 175 0.11%
7 746,320 99.37% 741,605 35.70% 476,852 216 6,560,499 3,581,318 812,705 439,852 1,712,228 216 0.14%
8 740,681 99.45% 736,620 41.65% 429,818 175 6,302,838 3,770,033 774,083 373,843 1,371,564 175 0.13%
9 796,267 99.26% 790,371 46.58% 422,216 185 5,912,422 3,315,249 750,314 391,048 1,446,279 185 0.06%
10 824,214 99.42% 819,412 34.25% 538,763 173 6,659,016 3,452,549 789,807 429,692 1,974,699 173 0.13%
11 907,032 99.49% 902,377 41.43% 528,522 187 6,821,254 3,589,634 848,971 457,821 1,920,495 187 0.01%
12 723,182 99.42% 718,992 40.04% 431,108 186 6,007,739 3,189,111 820,376 441,005 1,547,588 186 0.05%
13 757,465 99.40% 752,939 32.25% 510,116 226 7,312,418 3,957,401 949,337 506,277 1,885,676 226 0.11%
14 704,605 99.47% 700,873 28.40% 501,825 236 7,414,385 4,036,453 962,666 505,719 1,901,834 236 0.04%
15 848,248 99.36% 842,826 32.82% 566,211 237 8,209,359 4,558,756 1,039,097 548,348 2,057,758 237 0.02%
16 671,708 99.48% 668,214 30.39% 465,144 207 6,411,985 3,394,381 825,615 450,626 1,728,994 207 0.09%
17 674,292 99.00% 667,560 20.75% 529,041 271 9,834,370 5,669,224 1,397,474 711,518 2,043,394 271 0.12%
18 719,253 99.46% 715,397 21.75% 559,798 293 9,533,510 5,373,414 1,291,891 665,480 2,190,928 293 0.08%
19 710,519 99.45% 706,632 27.78% 510,330 238 7,693,018 4,174,384 985,573 543,665 1,974,396 238 0.19%
20 616,598 99.41% 612,983 26.13% 452,811 239 7,116,202 4,053,692 887,895 473,315 1,694,875 239 0.04%
21 537,817 99.41% 534,664 26.32% 393,940 248 6,713,399 3,640,490 986,162 533,538 1,538,588 248 0.18%
22 555,866 99.37% 552,346 24.06% 419,452 267 6,674,472 3,745,222 864,374 456,875 1,597,321 267 0.07%
23 757,629 99.41% 753,167 27.27% 547,778 285 8,975,868 5,274,165 1,149,491 580,488 1,957,153 285 0.16%
24 927,550 99.47% 922,657 33.11% 617,165 278 8,519,122 4,747,103 1,043,645 541,589 2,174,018 278 0.08%
17,127,262 99.39% 17,022,993 0.326725564 11,460,937 5282

PGP1 27 Device V9 (Single Denaturation Chamber) Random 8-mer Simplified Tag (mapped by BWA)

sample Raw_reads Mapping_rate Mappable_reads Clonal_rate unique 1+ 1 2 3 4+ contig
1 1,480,684 85.07% 1,259,630 11.35% 1,116,662 28,202,462 17,827,314 4,461,358 2,002,027 3,900,784 1172
2 2,476,110 84.84% 2,100,648 10.62% 1,877,559 50,199,659 32,697,547 7,891,411 3,466,986 6,133,949 2052
3 2,076,640 84.70% 1,758,960 13.46% 1,522,204 36,562,106 22,615,204 5,731,936 2,678,237 5,525,374 1569
4 2,585,471 84.95% 2,196,309 18.85% 1,782,305 38,366,483 23,350,637 5,558,526 2,683,868 6,761,756 1575
5 2,509,697 84.99% 2,132,876 16.38% 1,783,511 38,695,018 23,346,934 5,711,895 2,755,220 6,868,105 1557
6 2,507,716 83.81% 2,101,637 11.55% 1,858,898 48,577,207 30,697,865 8,089,904 3,572,249 6,205,117 1864
7 1,588,435 85.30% 1,354,986 11.82% 1,194,827 30,546,845 19,599,233 4,750,889 2,151,443 4,034,198 1213
8 1,830,362 84.94% 1,554,642 13.78% 1,340,412 31,477,052 19,449,511 4,799,064 2,251,458 4,964,223 1295
9 1,538,587 84.87% 1,305,738 11.89% 1,150,486 27,875,370 16,930,165 4,554,439 2,150,968 4,227,130 1176
10 1,803,655 83.93% 1,513,729 17.81% 1,244,134 26,099,118 14,937,914 4,111,228 2,073,787 4,963,100 1178
11 685,896 82.96% 568,994 9.24% 516,419 14,515,013 9,575,229 2,369,611 1,003,588 1,555,774 564
12 1,675,696 84.09% 1,409,135 18.18% 1,152,954 25,261,348 15,210,431 3,886,271 1,852,526 4,299,523 1092
13 801,322 83.09% 665,855 8.66% 608,192 16,626,916 10,639,944 2,770,778 1,225,417 1,981,825 692
14 1,237,749 84.48% 1,045,664 14.18% 897,389 21,610,252 13,211,504 3,549,909 1,643,587 3,193,289 948
15 1,795,853 84.39% 1,515,525 12.90% 1,320,022 31,113,300 18,820,522 4,986,232 2,367,286 4,924,145 1368
16 1,388,962 83.72% 1,162,800 11.81% 1,025,473 24,626,927 14,722,640 4,090,553 1,951,357 3,850,085 1111
17 898,337 83.76% 752,461 8.90% 685,492 19,839,335 13,493,328 3,049,461 1,278,103 2,002,794 714
18 2,183,939 84.70% 1,849,691 12.36% 1,621,069 45,154,767 32,652,070 5,432,330 2,257,855 4,796,727 1321
19 2,926,888 86.70% 2,537,523 21.26% 1,998,046 41,607,868 25,394,175 5,972,928 2,840,457 7,383,998 1736
20 2,816,541 85.39% 2,404,954 15.92% 2,022,085 50,893,687 35,550,833 6,281,460 2,616,744 6,428,559 1540
21 2,564,937 84.85% 2,176,410 20.53% 1,729,593 37,400,147 24,062,720 4,855,664 2,251,674 6,213,763 1393
22 2,287,061 84.89% 1,941,550 24.02% 1,475,190 29,662,766 18,667,830 3,780,716 1,797,528 5,401,079 1122
23 1,717,383 85.58% 1,469,733 18.70% 1,194,893 27,798,882 18,740,085 3,488,855 1,541,205 4,013,052 960
24 973,638 87.05% 847,546 20.08% 677,359 14,139,245 8,532,615 2,085,848 988,931 2,521,439 603
44,351,559 84.84% 37,626,996 0.154775334 31,795,173 29815