Table 1 |
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|
Purple Kush sequencing library statistics |
||||||
|
Library |
Insert size (bp) |
Raw No. |
Raw nt (Gb) |
Filtered No. |
Filtered nt (Gb) |
% in a) assembly |
|
|
||||||
|
Genomic DNA, Illumina 2 × 100 bp paired-end reads |
||||||
|
CS-PK_SIL-1a |
181 |
143,951,601 |
28.0 |
124,499,863 |
23.8 |
82.2 |
|
CS-PK_SIL-1b |
195 |
111,106,936 |
22.2 |
98,124,711 |
19.0 |
82.4 |
|
CS-PK_SIL-2a |
313 |
93,774,355 |
18.8 |
81,421,333 |
15.3 |
84.7 |
|
CS-PK_SIL-3b |
362 |
66,932,319 |
13.4 |
60,519,955 |
11.6 |
82.8 |
|
CS-PK_SIL-B |
664 |
95,648,778 |
19.1 |
49,550,098 |
9.2 |
85.1 |
|
CS-PK_SIL-C |
580 |
101,329,142 |
20.3 |
72,977,620 |
13.6 |
87.1 |
|
Genomic DNA, Illumina 2 × 44 bp mate pair reads |
||||||
|
CS-PK_2 kb-1a |
1,926 |
36,057,086 |
3.2 |
24,688,690 |
2.2 |
75.0 |
|
CS-PK_2 kb-1b |
1,846 |
32,385,628 |
2.8 |
24,405,458 |
2.1 |
76.8 |
|
CS-PK_2 kb-2a |
1,850 |
37,761,064 |
3.3 |
29,927,921 |
2.6 |
75.5 |
|
CS-PK_2 kb-2b |
1,787 |
37,111,622 |
3.3 |
28,744,604 |
2.5 |
77.1 |
|
CS-PK_5 kb-1 |
4,721 |
36,182,230 |
3.2 |
27,377,398 |
2.4 |
77.5 |
|
CS-PK_5 kb-2 |
4,585 |
64,613,144 |
5.7 |
50,712,974 |
4.4 |
79.9 |
|
Genomic DNA, 454 mate pairs |
||||||
|
CS-PK_8 kb-1 |
8,000 |
557,443 |
0.20 |
192,483 |
0.069 |
77.0 |
|
CS-PK_8 kb-2 |
8,000 |
484,033 |
0.17 |
176,405 |
0.063 |
74.5 |
|
CS-PK_8 kb-3 |
8,000 |
603,780 |
0.21 |
221,616 |
0.079 |
78.6 |
|
CS-PK_13 kb-1 |
13,000 |
430,642 |
0.11 |
96,503 |
0.030 |
75.1 |
|
CS-PK_20 kb-1 |
20,000 |
611,986 |
0.19 |
216,379 |
0.070 |
77.0 |
|
CS-PK_20 kb-2 |
20,000 |
575,618 |
0.21 |
228,811 |
0.081 |
77.0 |
|
CS-PK_30 kb-1 |
30,000 |
644,026 |
0.22 |
239,625 |
0.082 |
72.8 |
|
CS-PK_30 kb-2 |
30,000 |
536,273 |
0.15 |
150,510 |
0.048 |
73.4 |
|
CS-PK_40 kb-1 |
40,000 |
213,928 |
0.06 |
64,325 |
0.019 |
74.9 |
|
CS-PK_40 kb-2 |
40,000 |
627,945 |
0.21 |
241,189 |
0.079 |
76.8 |
|
CS-PK_40 kb-3 |
40,000 |
573,313 |
0.19 |
224,264 |
0.073 |
74.5 |
|
RNA, Illumina 1 × 100 bp single-end reads |
||||||
|
PK-Mid-flower |
- |
37,835,287 |
3.8 |
25,687,331 |
2.3 |
- |
|
PK-Early-flower |
- |
37,472,665 |
3.7 |
25,434,724 |
2.3 |
- |
|
PK-Pre-flower |
- |
54,026,640 |
5.4 |
35,522,980 |
3.2 |
- |
|
PK-Shoot |
- |
55,653,984 |
5.6 |
36,204,828 |
3.3 |
- |
|
PK-Stem |
- |
60,353,149 |
6.0 |
39,274,463 |
3.5 |
- |
|
PK-Root |
- |
37,374,640 |
3.7 |
24,904,927 |
2.2 |
- |
|
RNA, Illumina 2 × 100 bp paired-end reads |
||||||
|
PK-subtracted1 |
180 |
110,483,894 |
22.1 |
64,525,082 |
11.6 |
- |
|
PK-subtracted2 |
180 |
82,190,044 |
16.4 |
46,291,148 |
8.3 |
- |
|
PK-subtracted3 |
180 |
105,737,119 |
21.1 |
61,974,962 |
11.2 |
- |
|
PK-subtracted4 |
180 |
48,599,953 |
9.7 |
26,505,457 |
4.8 |
- |
|
|
||||||
|
a) Percentage of genomic DNA reads that could be mapped back to the canSat3 genome assembly |
||||||
|
van Bakel et al. Genome Biology 2011 12:R102 doi:10.1186/gb-2011-12-10-r102 |
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