Table 3 Association of CTCF binding with repetitive elements.

From: CTCF binding landscape in jawless fish with reference to Hox cluster evolution

Repeat ID* Repeat class/subclass* Number of region Odds ratio q-value
Whole genome ChIP-seq peak associated Control§
743 LTR/Gypsy 166 96 2 58.04 1.87E-29
274 DNA/hAT-Tip100 586 489 12 49.73 9.83E-147
771 DNA/hAT-Charlie 145 59 2 35.69 2.47E-17
738 DNA/hAT-Charlie 187 92 4 27.82 7.92E-26
697 LTR/Gypsy 359 137 7 23.70 6.85E-37
239 Unknown 1509 470 26 22.06 2.26E-124
749 DNA/hAT-Charlie 198 45 3 18.13 8.70E-12
828 SINE/tRNA-V 602 59 4 17.83 2.65E-15
337 Unknown 1553 345 24 17.50 9.98E-87
  1. *See Materials and Methods, for repeat identification and (sub)class assignment.
  2. Total number of individual repeat regions in the whole genome identified by RepeatMasker.
  3. Number of repeat regions overlapping with ChIP-seq peaks (summit ± 50 bp).
  4. §Number of repeat regions overlapping with control regions (50,000 regions of 100 bp each).
  5. p-values from Fisher’s exact test subjected to multiple correction by the Q-value package in R.