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Insert size, contig arrangement, and gene content of the Fragaria vesca fosmid sequences investigated

 
Fosmid clone Genbank Accession No. Insert size Total no. of contigs Contig arrangement Number of genes No. of gene fragments
Ordered Unordered Confirmed Hypothetical Confirmed + hypotethical
bp
01L02 EU024824 40,302 1 1 5 4 9 2
05N03 EU024825 34,710 8 7 1 4 0 4 0
11D02 EU024828 37,961 1 1 5 0 5 0
12K04 EU024829 33,108 6 6 0 0 0 0
13I03 EU024830 37,707 1 1 7 0 7 1
15B13 EU024833 23,612 5 5 0 0 0 0
17G19 EU024834 17,219 1 1 2 0 2 1
17O22 EU024835 34,190 2 2 6 0 6 2
18A19 EU024836 40,908 1 1 3 3 6 0
22H18 EU024839 37,851 1 1 4 1 5 0
22L05 EU024840 35,212 2 2 3 3 6 0
27F10 EU024841 37,210 2 2 3 2 5 1
29G10 EU024842 31,881 3 3 3 1 4 3
30I24 EU024843 37,599 3 3 9 2 11 0
32A10 EU024844 33,677 2 2 4 5 9 1
34D20 EU024846 30,034 2 2 4 2 6 1
38H02 EU024848 31,669 1 1 3 1 4 0
38H05 EU024849 32,050 2 2 1 2 3 0
40B22 EU024850 36,230 1 1 8 1 9 0
40M11 EU024851 31,718 1 1 5 0 5 2
43P07 EU024853 43,741 2 2 2 2 4 1
44J07 EU024854 29,836 3 3 2 2 4 4
47H15 EU024855 35,017 3 3 1 2 3 0
49B16 EU024857 40,969 9 6 3 0 0 0 0
49C17 EU024858 37,266 3 3 4 2 6 1
52E09 EU024862 37,346 1 1 5 4 9 0
63F17 EU024866 27,689 2 2 3 2 5 2
72E18 EU024867 36,293 1 1 8 1 9 1
75H22 EU024869 31,662 1 1 7 1 8 1
84N10 EU024872 40,283 2 2 2 2 4 0
Unordered contigs composed of ribosomal RNA genes.
Unordered contigs composed of long terminal repeat retrotransposon fragments.



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Transposable element (TE) composition of the Fragaria vesca fosmid sequences investigated.

 
TE type Family Number of elements Sequence covered
Intact Fragmented
bp %
LTR retrotransposons 17 13 135,585 13.1
Copia-like 9 4 55,752 5.4
13I03 1 4,146
27F10_1 2 12,416
38H02_1 1 3,635
47H15 1 7,167
52E09_1 3 4 21,638
84N10_1 1 6750
Gypsy-like 5 9 68,271 6.6
17G19_1 1 3,364
18A19_1 1 2 28,266
18A19_2 1 6 22,157
22H18 1 1 9,437
38H05_1 1 5,047
 unclassified 3 11,562 1.1
22L05_1 1 3,361
29G10_1 1 5,733
43P07_1 1 2,468
Non-LTR retrotransposons 3 1 11,663 1.1
44J07_1 1 482
47H15_1 1 5,669
52E09_1 1 1,946
72E18_1 1 3,566
CACTA-like transposons 2 2 13,403 1.3
29G10 1 2 11,668
34D20 1 1,735
MITEs 10 3 3,127 0.3
01L02 4 3 1,622
11D02 2 258
17022 1 83
72E18 3 1,164
Mu-like transposons 1 4,038 0.4
40B22 1 4,038
Unclassified repeats 12 20 43,466 4.2
22H18_1 2 197
22H18_2 2 1,954
38H05_1 1 3 655
44J07_1 1 4 1,519
47H15_1 2 659
84N10_1 2 6 22,841
43P07_2 1 5 14,975
63F17_1 1 2 666
Totals 45 39 211,282 20.4
LTR, long terminal repeat.