Table 2 Mapping statistics for different experimental replicates
From: A streamlined tethered chromosome conformation capture protocol
Technology | HiSeq 100X2 | HiSeq 100X2 | HiSeq 100X2 | HiSeq 100X2 |
|---|---|---|---|---|
Sample | N2 L1 Fed AvaII | N2 L1 Fed DpnII | N2 L1 Starved AvaII | N2 L1 Starved DpnII |
GEO accession | GSM2041035- SRR3105470 | GSM2041036- SRR3105472 | GSM2041033- SRR3105465 | GSM2041034- SRR3105468 |
Total number of reads | 45,346,483 | 50,098,648 | 12,074,391 | 31,699,338 |
Both sides aligned | 29,802,885 | 29,416,663 | 8,325,030 | 22,664,227 |
Concordant Pairs | 20,376,818 | 16,485,927 | 4,352,019 | 12,630,225 |
intra-chromosomal Pairs | 3,943,229 | 5,728,073 | 2,103,366 | 6,332,935 |
inter-chromosomal Pairs | 1,712,801 | 3,814,807 | 559,830 | 2,321,074 |
Hi-C valid pairs | 5,656,030 | 9,542,880 | 2,663,196 | 8,654,009 |
% Hi-C valid pairs | 19 | 32.4 | 32 | 38.2 |