Table 3 Genomic features significantly different in islands compared with whole genomic DNA.
From: Genome-wide sequence and functional analysis of early replicating DNA in normal human fibroblasts
| Â | Â | Â | Islands that overlap with replication timing markers1 | ||
|---|---|---|---|---|---|
Feature | Genome | All Islands | Islands with a ≥ 1.65-timing ratio1 | Islands with a ≥ 1.75-timing ratio1 | Islands with a ≥ 1.85-timing ratio1 |
100-kb windows | 28358 | 1749 | 228 | 144 | 78 |
Genes | 30078 | 2815 | 606 | 428 | 252 |
Genes/100 kb | 1.06 | 1.60 | 2.66 | 2.97 | 3.23 |
Promoters 2 | 10415 | 948 | 223 | 170 | 111 |
Promoters/100 kb | 0.37 | 0.55 | 0.98 | 1.18 | 1.42 |
Transcribed | 37.61% | 43.73% | 56.37% | 55.88% | 54.79% |
Translated | 1.11% | 1.81% | 3.08% | 3.42% | 3.35% |
CpG_Islands | 1.94% | 4.05% | 5.20% | 5.83% | 6.58% |
CpG_Content | 1.96% | 2.76% | 3.39% | 3.63% | 3.86% |
GC_Content | 40.88% | 45.51% | 48.71% | 49.82% | 50.52% |
Conserved | 4.83% | 5.78% | 7.18% | 7.50% | 7.86% |
All_Repeats | 48.52% | 45.68% | 44.23% | 44.78% | 46.21% |
SINE | 13.67% | 17.18% | 23.28% | 25.05% | 27.71% |
   Alu | 10.75% | 13.54% | 18.99% | 20.66% | 23.59% |
   MIR | 2.92% | 3.64% | 4.29% | 4.39% | 4.11% |
LINE | 21.10% | 15.94% | 11.55% | 10.73% | 10.06% |
   L1 | 17.48% | 12.27% | 7.83% | 6.97% | 6.53% |
LTR | 8.71% | 7.45% | 5.28% | 4.98% | 4.65% |
   MaLR | 3.79% | 3.30% | 2.37% | 2.34% | 2.18% |
   ERV1 | 3.00% | 2.58% | 1.76% | 1.66% | 1.51% |
   ERVL | 1.61% | 1.32% | 0.85% | 0.75% | 0.71% |
DNA transposons | 3.02% | 2.71% | 2.35% | 2.23% | 2.02% |
   MER2_type | 1.06% | 0.79% | 0.63% | 0.55% | 0.54% |
   Mariner | 0.10% | 0.07% | 0.04% | 0.04% | 0.03% |
Low_complexity | 0.58% | 0.54% | 0.51% | 0.50% | 0.49% |
Tandem_Repeats | 1.82% | 2.64% | 2.1% | 2.24% | 2.44% |