Table 3.
Descriptive statistics for the Litopenaeus vannamei integrated linkage and LODE map (build 1.2).
| Linkage group | No. SNPs placed by linkage mapping | No. SNPs placed by linkage & LODE mapping | Additional SNPs placed by LODE | Sex average map length (cM) | Female map length (cM) | Male map length (cM) | Sex average expected genome length (Ge) | Female: male ratio | Average interval (cM) (SD) | Average interval excluding 0’s (cM) (SD) | All | 0–1 cM | 1–2 cM | 2–3 cM | >3 cM |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 86 | 94 | 8 | 156.10 | 165.00 | 142.10 | 159.46 | 1.16 | 1.66 (±3.33) | 3.47 (±4.13) | 45 | 11 | 9 | 6 | 19 |
| 2 | 130 | 137 | 7 | 154.80 | 167.70 | 148.40 | 157.08 | 1.13 | 1.13 (±2.15) | 2.76 (±2.62) | 56 | 15 | 14 | 7 | 20 |
| 3 | 153 | 184 | 31 | 154.30 | 158.90 | 148.10 | 155.99 | 1.07 | 0.84 (±2.52) | 2.66 (±3.93) | 58 | 24 | 17 | 6 | 11 |
| 4 | 121 | 131 | 10 | 149.80 | 140.70 | 164.30 | 152.10 | 0.86 | 1.14 (±2.95) | 3.4 (±4.3) | 44 | 8 | 12 | 8 | 16 |
| 5 | 141 | 156 | 15 | 148.60 | 151.70 | 153.70 | 150.52 | 0.99 | 0.95 (±1.99) | 2.32 (±2.55) | 64 | 23 | 18 | 6 | 17 |
| 6 | 169 | 190 | 21 | 147.70 | 162.80 | 118.90 | 149.26 | 1.37 | 0.78 (±2.05) | 2.38 (±3.03) | 62 | 25 | 18 | 5 | 14 |
| 7 | 147 | 161 | 14 | 147.20 | 141.60 | 155.80 | 149.04 | 0.91 | 0.91 (±1.78) | 2.26 (±2.19) | 65 | 22 | 20 | 7 | 16 |
| 8 | 127 | 131 | 4 | 147.20 | 136.50 | 175.90 | 149.46 | 0.78 | 1.12 (±1.99) | 2.45 (±2.33) | 60 | 11 | 23 | 10 | 16 |
| 9 | 120 | 132 | 12 | 142.70 | 155.30 | 114.20 | 144.88 | 1.36 | 1.08 (±2.18) | 2.55 (±2.74) | 56 | 17 | 14 | 6 | 19 |
| 10 | 117 | 125 | 8 | 137.90 | 121.10 | 166.60 | 140.12 | 0.73 | 1.1 (±2.82) | 3.28 (±4.09) | 42 | 9 | 9 | 10 | 14 |
| 11 | 97 | 105 | 8 | 128.50 | 129.30 | 130.80 | 130.97 | 0.99 | 1.22 (±3.14) | 2.57 (±4.17) | 50 | 17 | 18 | 7 | 8 |
| 12 | 93 | 95 | 2 | 124.80 | 141.20 | 102.10 | 127.46 | 1.38 | 1.31 (±2.47) | 3.04 (±2.99) | 41 | 11 | 11 | 3 | 16 |
| 13 | 107 | 118 | 11 | 123.30 | 136.20 | 99.70 | 125.41 | 1.37 | 1.04 (±2.05) | 2.47 (±2.54) | 50 | 16 | 14 | 7 | 13 |
| 14 | 98 | 117 | 19 | 121.50 | 128.70 | 110.30 | 123.59 | 1.17 | 1.04 (±2.79) | 3.12 (±4.13) | 39 | 10 | 10 | 4 | 15 |
| 15 | 119 | 141 | 22 | 121.20 | 127.70 | 112.20 | 122.93 | 1.14 | 0.86 (±2.41) | 2.63 (±3.64) | 46 | 11 | 20 | 4 | 11 |
| 16 | 113 | 121 | 8 | 109.90 | 106.10 | 121.00 | 111.73 | 0.88 | 0.91 (±2.43) | 2.97 (±3.67) | 37 | 14 | 7 | 4 | 12 |
| 17 | 118 | 123 | 5 | 106.70 | 100.20 | 126.60 | 108.45 | 0.79 | 0.87 (±1.8) | 2.48 (±2.3) | 43 | 14 | 8 | 8 | 13 |
| 18 | 79 | 87 | 8 | 106.90 | 113.90 | 91.10 | 109.39 | 1.25 | 1.23 (±2.3) | 3.05 (±2.77) | 35 | 8 | 10 | 2 | 15 |
| 19 | 117 | 121 | 4 | 106.00 | 102.60 | 76.90 | 107.77 | 1.33 | 0.88 (±1.95) | 2.26 (±2.6) | 47 | 22 | 7 | 5 | 13 |
| 20 | 134 | 155 | 21 | 104.30 | 102.10 | 87.30 | 105.65 | 1.17 | 0.67 (±1.56) | 2.22 (±2.15) | 47 | 15 | 12 | 9 | 11 |
| 21 | 68 | 71 | 3 | 103.50 | 112.70 | 86.10 | 106.46 | 1.31 | 1.46 (±2.84) | 3.34 (±3.52) | 31 | 11 | 3 | 4 | 13 |
| 22 | 131 | 142 | 11 | 97.20 | 92.60 | 112.40 | 98.58 | 0.82 | 0.68 (±2.08) | 2.37 (±3.33) | 41 | 11 | 15 | 9 | 6 |
| 23 | 70 | 81 | 11 | 97.20 | 83.40 | 125.70 | 99.63 | 0.66 | 1.2 (±2.5) | 3.47 (±3.22) | 28 | 5 | 6 | 7 | 10 |
| 24 | 67 | 76 | 9 | 95.30 | 92.20 | 59.70 | 97.84 | 1.54 | 1.25 (±2.51) | 3.29 (±3.15) | 29 | 4 | 9 | 3 | 13 |
| 25 | 91 | 111 | 20 | 94.00 | 83.40 | 109.70 | 95.71 | 0.76 | 0.85 (±2.17) | 2.69 (±3.19) | 35 | 13 | 8 | 5 | 9 |
| 26 | 82 | 89 | 7 | 92.20 | 82.70 | 108.10 | 94.30 | 0.77 | 1.04 (±2.4) | 3.07 (±3.32) | 30 | 11 | 7 | 2 | 10 |
| 27 | 109 | 117 | 8 | 90.20 | 96.30 | 77.80 | 91.76 | 1.24 | 0.77 (±1.63) | 2.31 (±2.11) | 39 | 13 | 7 | 8 | 11 |
| 28 | 93 | 100 | 7 | 86.20 | 88.50 | 88.90 | 87.94 | 1.00 | 0.86 (±2.99) | 2.54 (±4.74) | 34 | 13 | 8 | 9 | 4 |
| 29 | 50 | 57 | 7 | 85.70 | 95.80 | 73.40 | 88.76 | 1.31 | 1.5 (±3.77) | 4.29 (±5.42) | 20 | 2 | 7 | 2 | 9 |
| 30 | 82 | 94 | 12 | 85.70 | 73.90 | 103.60 | 87.54 | 0.71 | 0.91 (±2.38) | 2.68 (±3.48) | 32 | 13 | 6 | 5 | 8 |
| 31 | 100 | 105 | 5 | 82.40 | 79.60 | 87.00 | 83.98 | 0.91 | 0.78 (±1.68) | 2.17 (±2.2) | 38 | 15 | 9 | 4 | 10 |
| 32 | 57 | 64 | 7 | 82.10 | 82.40 | 92.70 | 84.71 | 0.89 | 1.28 (±2.86) | 3.91 (±3.86) | 21 | 3 | 4 | 3 | 11 |
| 33 | 87 | 96 | 9 | 81.10 | 79.90 | 99.80 | 82.81 | 0.80 | 0.84 (±2.16) | 2.46 (±3.13) | 33 | 14 | 5 | 7 | 7 |
| 34 | 103 | 116 | 13 | 80.10 | 79.50 | 85.10 | 81.49 | 0.93 | 0.69 (±1.24) | 1.91 (±1.39) | 42 | 11 | 14 | 8 | 9 |
| 35 | 63 | 82 | 19 | 80.40 | 75.30 | 91.50 | 82.39 | 0.82 | 0.98 (±2.08) | 3.09 (±2.68) | 26 | 7 | 7 | 2 | 10 |
| 36 | 94 | 96 | 2 | 79.40 | 71.60 | 88.10 | 81.07 | 0.81 | 0.83 (±2) | 1.99 (±2.71) | 40 | 19 | 9 | 4 | 8 |
| 37 | 86 | 88 | 2 | 79.00 | 71.40 | 69.30 | 80.82 | 1.03 | 0.9 (±1.5) | 1.98 (±1.69) | 40 | 11 | 13 | 8 | 8 |
| 38 | 79 | 93 | 14 | 73.80 | 82.40 | 73.20 | 75.40 | 1.13 | 0.79 (±2.46) | 3.35 (±4.19) | 22 | 5 | 5 | 6 | 6 |
| 39 | 83 | 90 | 7 | 72.60 | 64.30 | 90.10 | 74.23 | 0.71 | 0.81 (±1.83) | 2.5 (±2.49) | 29 | 9 | 5 | 9 | 6 |
| 40 | 136 | 140 | 4 | 68.50 | 69.20 | 70.50 | 69.49 | 0.98 | 0.49 (±1.52) | 1.8 (±2.49) | 38 | 21 | 8 | 3 | 6 |
| 41 | 46 | 49 | 3 | 63.70 | 69.50 | 51.60 | 66.35 | 1.35 | 1.3 (±2.73) | 3.35 (±3.55) | 19 | 6 | 4 | 3 | 6 |
| 42 | 78 | 87 | 9 | 56.10 | 56.90 | 55.10 | 57.40 | 1.03 | 0.64 (±1.35) | 1.7 (±1.75) | 33 | 15 | 10 | 2 | 6 |
| 43 | 107 | 125 | 18 | 43.80 | 41.40 | 48.50 | 44.51 | 0.85 | 0.35 (±0.82) | 1 (±1.12) | 44 | 29 | 9 | 3 | 3 |
| 44 | 22 | 24 | 2 | 22.90 | 16.40 | 28.40 | 24.89 | 0.58 | 0.95 (±1.38) | 2.08 (±1.34) | 11 | 3 | 2 | 1 | 5 |
| Total/average | 4370 | 4817 | 447 | 4532.50 | 4530.60 | 4522.30 | 4619.32 | 1.02 | 0.97 (±2.22) | 2.67 (±3.02) | 1751 | 571 | 454 | 241 | 485 |
| Genome Coverage | 98.12% | ||||||||||||||
All cM distances are in calculated using Kosambi functions.