Table 4 Statistics for glocal alignment of real human optical maps from HCT116 colorectal cancer cell line
Map card | F | Input maps | Details | OPTIMA | Gentig v.2 | Increase w.r.t. Gentig v.2 | Yield (genome coverage) | Avg. length and size | Avg. digestion rate | Avg. false/extra cut rate | Avg. WHT chi square sizing error |
|---|---|---|---|---|---|---|---|---|---|---|---|
17182LA | (r) | 10,911 (0.9X) | Avg. quality 0.33; size 257 kbp, 16 f; AFS 15.7 kbp | 4 % | 0.5 % | 8.1X | 0.04X | 19 f | 245 kbp | 66 % | 1.29 | –1.15 |
(s) | 3,744 (0.4X) | Avg. quality 0.33; size 351 kbp, 20 f; AFS 17.7 kbp | 4 % | 0.9 % | 4.5X | 0.02X | 22 f | 326 kbp | 63 % | 1.23 | –0.83 | |
17184LA-2 | (r) | 55,719 (5.7X) | Avg. quality 0.43; size 305 kbp, 19 f; AFS 16.3 kbp | 18 % | 9 % | 1.9X | 1.1X | 23 f | 332 kbp | 68 % | 0.76 | –0.65 |
(s) | 28,658 (3.7X) | Avg. quality 0.45; size 390 kbp, 23 f; AFS 17.2 kbp | 25 % | 15 % | 1.6X | 0.9X | 25 f | 378 kbp | 67 % | 0.74 | –0.51 | |
17185LA | (r) | 56,879 (5.4X) | Avg. quality 0.55; size 285 kbp, 19 f; AFS 14.7 kbp | 24 % | 18 % | 1.4X | 1.5X | 23 f | 325 kbp | 70 % | 0.76 | –0.17 |
(s) | 28,003 (3.4X) | Avg. quality 0.59; size 365 kbp, 24 f; AFS 15.1 kbp | 35 % | 28 % | 1.2X | 1.2X | 26 f | 367 kbp | 70 % | 0.74 | –0.04 | |
17186LA-3 | (r) | 52,984 (5.8X) | Avg. quality 0.54; size 328 kbp, 20 f; AFS 16.0 kbp | 33 % | 19 % | 1.7X | 2X | 24 f | 342 kbp | 70 % | 0.68 | –0.35 |
(s) | 31,588 (4.3X) | Avg. quality 0.56; size 404 kbp, 25 f; AFS 16.4 kbp | 42 % | 28 % | 1.5X | 1.7X | 26 f | 380 kbp | 69 % | 0.67 | –0.26 | |
17187LA | (r) | 88,730 (7.8X) | Avg. quality 0.45; size 264 kbp, 18 f; AFS 14.8 kbp | 12 % | 7 % | 1.7X | 1X | 21 f | 285 kbp | 69 % | 0.94 | –0.56 |
(s) | 36,018 (4.2X) | Avg. quality 0.46; size 349 kbp, 22 f; AFS 15.8 kbp | 17 % | 11 % | 1.6X | 0.7X | 24 f | 338 kbp | 68 % | 0.92 | –0.35 | |
14593LB | (r) | 30,994 (2.7X) | Avg. quality 0.39; size 261 kbp, 14 f; AFS 18.9 kbp | 6 % | 0.6 % | 9.9X | 0.2X | 16 f | 269 kbp | 63 % | 0.85 | –1.23 |
(s) | 10,944 (1.2X) | Avg. quality 0.39; size 337 kbp, 17 f; AFS 20.2 kbp | 9 % | 0.7 % | 12.3X | 0.1X | 18 f | 320 kbp | 60 % | 0.87 | –0.97 | |
TOTAL | (r) | 296,217 (28.3X) | Avg. quality 0.47; size 287 kbp, 18 f; AFS 15.7 kbp | 18 % | 11 % | 1.7X | 5.7X | 23 f | 322 kbp | 69 % | 0.77 | –0.44 |
(s) | 138,955 (17.2X) | Avg. quality 0.50; size 372 kbp, 23 f; AFS 16.5 kbp | 27 % | 18 % | 1.5X | 4.6X | 25 f | 368 kbp | 68 % | 0.75 | –0.28 |