Table 1.
Quality statistics of original sequencing data and alignment analysis of filtered data with reference genome sequence
| Sample | Raw_reads | Clean_reads | Clean_bases | Q20 | Q30 | Total_map | Unique_map | Multi_map |
|---|---|---|---|---|---|---|---|---|
| RGJ8_0_1 | 54,855,784 | 53,608,048 | 8.04G | 97.83 | 93.58 | 35,656,422(66.51%) | 33,895,916(63.23%) | 1,760,506(3.28%) |
| RGJ8_0_2 | 50,754,086 | 49,391,586 | 7.41G | 98.02 | 93.98 | 33,894,841(68.62%) | 32,215,839(65.23%) | 1,679,002(3.4%) |
| RGJ8_0_3 | 60,342,940 | 58,716,810 | 8.81G | 97.92 | 93.76 | 41,968,662(71.48%) | 39,919,527(67.99%) | 2,049,135(3.49%) |
| RGJ8_1_1 | 55,763,332 | 54,758,234 | 8.21G | 97.84 | 93.58 | 41,532,205(75.85%) | 39,473,934(72.09%) | 2,058,271(3.76%) |
| RGJ8_1_2 | 54,963,332 | 53,697,528 | 8.05G | 97.98 | 93.92 | 40,923,281(76.21%) | 39,087,326(72.79%) | 1,835,955(3.42%) |
| RGJ8_1_3 | 53,018,150 | 52,143,466 | 7.82G | 98.06 | 94.11 | 38,338,903(73.53%) | 36,568,391(70.13%) | 1,770,512(3.4%) |
| RGJ8_2_1 | 62,021,164 | 60,915,180 | 9.14G | 97.74 | 93.36 | 47,688,641(78.29%) | 45,463,907(74.63%) | 2,224,734(3.65%) |
| RGJ8_2_2 | 65,214,940 | 64,099,854 | 9.61G | 98.07 | 94.11 | 47,955,582(74.81%) | 45,694,127(71.29%) | 2,261,455(3.53%) |
| RGJ8_2_3 | 63,298,644 | 62,034,718 | 9.31G | 97.9 | 93.72 | 47,573,504(76.69%) | 45,225,371(72.9%) | 2,348,133(3.79%) |
| RGJ8_3_1 | 69,201,124 | 67,485,452 | 10.12G | 97.84 | 93.58 | 50,006,430(74.1%) | 47,384,881(70.21%) | 2,621,549(3.88%) |
| RGJ8_3_2 | 77,918,304 | 76,533,928 | 11.48G | 97.96 | 93.82 | 57,958,641(75.73%) | 54,988,545(71.85%) | 2,970,096(3.88%) |
| RGJ8_3_3 | 68,399,538 | 67,593,522 | 10.14G | 97.91 | 93.77 | 51,855,415(76.72%) | 49,265,248(72.88%) | 2,590,167(3.83%) |
| RXGH_0_1 | 60,470,236 | 59,395,634 | 8.91G | 97.77 | 93.47 | 42,773,878(72.02%) | 40,808,492(68.71%) | 1,965,386(3.31%) |
| RXGH_0_2 | 64,126,042 | 63,252,848 | 9.49G | 98.08 | 94.18 | 46,675,900(73.79%) | 44,499,900(70.35%) | 2,176,000(3.44%) |
| RXGH_0_3 | 58,523,750 | 57,486,536 | 8.62G | 97.82 | 93.59 | 42,259,753(73.51%) | 40,308,434(70.12%) | 1,951,319(3.39%) |
| RXGH_1_1 | 59,230,394 | 58,084,228 | 8.71G | 97.92 | 93.82 | 41,855,180(72.06%) | 40,072,574(68.99%) | 1,782,606(3.07%) |
| RXGH_1_2 | 62,660,420 | 61,717,000 | 9.26G | 97.79 | 93.49 | 45,089,703(73.06%) | 43,198,530(69.99%) | 1,891,173(3.06%) |
| RXGH_1_3 | 62,732,322 | 61,817,364 | 9.27G | 97.78 | 93.45 | 46,399,696(75.06%) | 44,450,491(71.91%) | 1,949,205(3.15%) |
| RXGH_2_1 | 74,887,522 | 73,620,460 | 11.04G | 97.74 | 93.36 | 56,299,859(76.47%) | 53,684,052(72.92%) | 2,615,807(3.55%) |
| RXGH_2_2 | 86,367,676 | 84,896,874 | 12.73G | 97.66 | 93.14 | 66,256,302(78.04%) | 63,046,641(74.26%) | 3,209,661(3.78%) |
| RXGH_2_3 | 68,133,460 | 67,070,154 | 10.06G | 98.34 | 94.79 | 51,470,162(76.74%) | 49,089,797(73.19%) | 2,380,365(3.55%) |
| RXGH_3_1 | 59,273,332 | 58,226,124 | 8.73G | 97.77 | 93.46 | 45,695,896(78.48%) | 43,444,717(74.61%) | 2,251,179(3.87%) |
| RXGH_3_2 | 58,250,960 | 57,096,602 | 8.56G | 97.81 | 93.5 | 44,842,303(78.54%) | 42,632,664(74.67%) | 2,209,639(3.87%) |
| RXGH_3_3 | 64,050,116 | 62,981,048 | 9.45G | 97.91 | 93.77 | 49,630,747(78.8%) | 47,242,197(75.01%) | 2,388,550(3.79%) |