/export/projects/cc/hg/gs.2/oo.12 Statistics for HGAP Golden Path /export/projects/cc/hg/gs.2/oo.12 (ooGreedy ver. 52) (Filtered by min_raft_clones=0) Total Bases: 2548519012 in 6919 'barges', 224790 'rafts'(with 202868 singletons), 24169 clones, and 284094 'fragments'. The GP rafts had a mean size (in bases) of 11337.33, with median 2919. There were 5380 barge gaps (3341 bridged, and 2039 open) in the GP. According to grep & */*/barge.52 (IE, regardless of filtering and 'flattening' to GP, there were 6919 barges: 5380 gaps ( 3341 bridged, and 2039 open). There were 24558 clones in */*/geno.lst. Global Coverage Statistics: all: mean=0.81 median=0.91 mode=1 S.D.=0.22 range=0.97 90 308 598 969 1304 1686 2071 2412 2539 12581 [0.13][0.22][0.32][0.42][0.51][0.61][0.71][0.81][0.90][1.00] all_thick: mean=0.83 median=0.93 mode=1 S.D.=0.21 range=0.97 47 227 477 823 1120 1466 1931 2412 2539 12581 [0.13][0.22][0.32][0.42][0.51][0.61][0.71][0.81][0.90][1.00] finished: mean=1.00 median=1 mode=1 S.D.=0.02 range=0.86 1 0 0 2 0 0 1 1 1 6037 [0.22][0.31][0.39][0.48][0.57][0.65][0.74][0.83][0.91][1.00] unfinished: mean=0.77 median=0.81 mode=1 S.D.=0.22 range=0.97 32 180 381 670 961 1283 1639 1989 2124 5460 [0.13][0.22][0.32][0.42][0.51][0.61][0.71][0.81][0.90][1.00] predraft: mean=0.68 median=0.72 mode=1 S.D.=0.25 range=0.97 58 128 219 298 340 404 430 422 414 1083 [0.13][0.22][0.32][0.42][0.51][0.61][0.71][0.81][0.90][1.00] finished_thick: mean=1.00 median=1 mode=1 S.D.=0.01 range=0.30 1 1 0 0 0 0 1 3 1 6033 [0.73][0.76][0.79][0.82][0.85][0.88][0.91][0.94][0.97][1.00] unfinished_thick: mean=0.78 median=0.83 mode=1 S.D.=0.21 range=0.97 19 131 296 555 819 1098 1516 1989 2124 5460 [0.13][0.22][0.32][0.42][0.51][0.61][0.71][0.81][0.90][1.00] predraft_thick: mean=0.70 median=0.74 mode=1 S.D.=0.24 range=0.96 36 100 195 258 304 373 400 427 408 1075 [0.14][0.23][0.33][0.42][0.52][0.62][0.71][0.81][0.90][1.00] Weighted Raft Sizes based on Estimated pre-GP raft size: All: sum_raft size^2(raft) -------------------- sum_raft size(raft) = 444911728943042 / 2552230132 = 174322 sum_raft size(raft) ------------------- total number of rafts = 2552230132 / 224790 = 11353 Median raft length = 2919 Fin: sum_raft size^2(raft) -------------------- sum_raft size(raft) = 444911728943042 / 2552230132 = 174322 sum_raft size(raft) ------------------- total number of rafts = 2552230132 / 224790 = 11353 Median raft length = 2919 Deep: sum_raft size^2(raft) -------------------- sum_raft size(raft) = 60594441551424 / 786332224 = 77059 sum_raft size(raft) ------------------- total number of rafts = 786332224 / 26050 = 30185 Median raft length = 16908 Draft: sum_raft size^2(raft) -------------------- sum_raft size(raft) = 19583322701482 / 1043286006 = 18770 sum_raft size(raft) ------------------- total number of rafts = 1043286006 / 195629 = 5332 Median raft length = 2409 finished_raft_size weighted avg: 363839153156705 / 719114743= 505954.239846123 deep_raft_size weighted avg: 56179559435098 / 680771866= 82523.3271832917 draft_raft_size weighted avg: 24090119283375 / 1148632403= 20972.8710599286 Detailed Golden Path Statistics: ========================================== barge_size: number=6919 mean=368336.32 median=248768 mode=100000 S.D.=355770.98 range=5789782 5699 953 198 54 8 2 1 3 0 1 [579176.20][1158154.40][1737132.60][2316110.80][2895089.00][3474067.20][4053045.40][4632023.60][5211001.80][5789980.00] barge_rafts: number=6919 mean=32.49 median=22 mode=1 S.D.=37.66 range=418 5115 1243 350 121 53 22 7 4 2 2 [42.80][84.60][126.40][168.20][210.00][251.80][293.60][335.40][377.20][419.00] barge_clones: number=6919 mean=36.86 median=24 mode=1 S.D.=42.59 range=453 5088 1203 380 141 58 27 13 5 1 3 [46.30][91.60][136.90][182.20][227.50][272.80][318.10][363.40][408.70][454.00] raft_size: number=224790 mean=11337.33 median=2919 mode=1011 S.D.=42978.30 range=5763900 9 3369 4731 51291 24648 17505 123237 [100.00][500.00][1000.00][1500.00][2000.00][2500.00][inf] raft_clones: number=224790 mean=1.13 median=1 mode=1 S.D.=0.53 range=31 224121 553 65 27 10 4 4 2 2 2 [4.10][7.20][10.30][13.40][16.50][19.60][22.70][25.80][28.90][32.00] raft_fragments: number=224790 mean=1.26 median=1 mode=1 S.D.=1.08 range=32 219941 3379 990 285 140 31 12 8 2 2 [4.20][7.40][10.60][13.80][17.00][20.20][23.40][26.60][29.80][33.00] finished_raft_size: number=3090 mean=232723.22 median=174960 mode=100000 S.D.=252205.84 range=5763802 2911 145 20 9 3 0 0 1 0 1 [576578.20][1152958.40][1729338.60][2305718.80][2882099.00][3458479.20][4034859.40][4611239.60][5187619.80][5764000.00] deep_raft_size: number=19571 mean=34784.73 median=20603 mode=5783 S.D.=40751.18 range=426511 14641 3088 1047 423 233 84 31 13 8 3 [43067.10][85718.20][128369.30][171020.40][213671.50][256322.60][298973.70][341624.80][384275.90][426927.00] draft_raft_size: number=202129 mean=5682.67 median=2503 mode=1011 S.D.=9321.46 range=384498 199323 2338 329 100 34 2 1 0 1 1 [38549.80][76999.60][115449.40][153899.20][192349.00][230798.80][269248.60][307698.40][346148.20][384598.00] clone_size: number=24169 mean=105445.78 median=106813 mode=339000 S.D.=59755.51 range=547370 5940 6495 7705 3630 214 55 120 5 3 2 [54790.00][109527.00][164264.00][219001.00][273738.00][328475.00][383212.00][437949.00][492686.00][547423.00] clone_extent: number=24169 mean=179960.55 median=168853 mode=338999 S.D.=125636.13 range=5774284 23929 218 18 2 0 0 0 1 0 1 [577480.40][1154908.80][1732337.20][2309765.60][2887194.00][3464622.40][4042050.80][4619479.20][5196907.60][5774336.00] clone_coverage: number=24169 mean=0.70 median=0.82 mode=1.00 S.D.=0.32 range=1.02 905 1479 1641 1708 1698 1589 1498 1464 1284 10903 [0.10][0.21][0.31][0.41][0.51][0.61][0.71][0.82][0.92][1.02]