BLAST Results of Small Insert Maize Library “cne1g”
| Category | Homology | # of sequences | % of total | 95% C.I.[i] | Element type | Size of element (LTR)[ii] |
| Retroelement-related sequences | Ji | 203 | 9.4 | 8.25–10.71 | copia | 8.3 kb (1.1 kb) |
| Opie | 154 | 7.1 | 6.13–8.30 | copia | 9.0 kb (1.1 kb) | |
| Prem-2 | 35 | 1.6 | 1.17–2.25 | copia | 9.4 kb (1.3 kb) | |
| Victim | 4 | 0.2 | 0.00–0.42 | copia | 5.4 kb (100 bp) | |
| Fourf | 8 | 0.4 | 0.09–0.70 | copia | 6.8 kb (1.1 kb) | |
| Hopscotch | 1 | 0.0 | 0.00–0.19 | copia | 4.8 kb (230 bp) | |
| Huck | 231 | 10.7 | 9.47–12.08 | gypsy | 11–12 kb (1.61 kb) | |
| Grande1–4 | 85 | 3.9 | 3.20–4.85 | gypsy | 13.7 kb (600 bp) | |
| Cinful | 76 | 3.5 | 2.82–4.39 | gypsy | 8.5 kb (600 bp) | |
| ‘ANLI’ retro | 67 | 3.1 | 2.45–3.93 | gypsy | Unknown | |
| Tekay | 26 | 1.2 | 0.82–1.76 | gypsy | 12 kb (3.2 kb) | |
| Milt | 15 | 0.7 | 0.42–1.14 | gypsy | 4.7 kb (700 bp) | |
| Reina | 0 | 0.0 | 0.00–0.14 | gypsy | 5.4 kb (300 bp) | |
| Magellan | 0 | 0.0 | 0.00–0.14 | gypsy | 5.7 kb (340 bp) | |
| Zeon-1 | 103 | 4.8 | 3.95–5.76 | — | 7.3 kb (650 bp) | |
| Prem-1 | 53 | 2.5 | 1.88–3.20 | LTR only | Unknown (1–1.6) | |
| Cin1 | 11 | 0.5 | 0.19–0.84 | LTR only | Unknown (700 bp) | |
| Kake | 4 | 0.2 | 0.00–0.42 | — | 5.9 kb (170 bp) | |
| Other retrotransposons | 151 | 7.0 | 6.00–8.16 | — | ||
| LINEs | 3 | 0.1 | 0.00–0.37 | |||
| Unknown repeats | Repeat–22kD zein region | 92 | 4.3 | 3.49–5.20 | ||
| Repeat–19 kD zein region | 16 | 0.7 | 0.46–1.20 | |||
| Repeat–unknown | 196 | 9.1 | 7.95–10.37 | |||
| Other dispersed repeats | DNA transposons | 26 | 1.2 | 0.82–1.76 | ||
| MITEs | 15 | 0.7 | 0.42–1.14 | |||
| Tandemly repetitive sequences | Knob repeats | 42 | 1.9 | 1.44–2.62 | ||
| Ribosomal DNA | 39 | 1.8 | 1.33–2.46 | |||
| Centromeric repeats | 10 | 0.5 | 0.14–0.79 | |||
| Other | Chloroplast DNA | 37 | 1.7 | 1.25–2.36 | ||
| Similarity to genes | 117 | 5.4 | 4.55–6.46 | |||
| Unknown | 337 | 15.6 | 14.15–17.22 |
[i] C.I., 95% confidence interval for estimate of the percentage of the genome comprised by each class.
[ii] The size of the known retroelements and LTRs was determined from GenBank accessions.