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Table 2 CNV regions from 50 CNVs of three detection algorithms in comparison with recent studies

From: Analysis of copy number variants by three detection algorithms and their association with body size in horses

ECA CNV regions detected by CNVPartition, PennCNV, QuantiSNP (717 horses) (bp) CN Samples (n) CNV regions detected by PennCNV (477 horses); Dupuis et al.(bp) CN Samples (n) CNV regions detected CGH analysis (16 horses); Doan et al.(bp) CN Samples (n)
1 155487276-155656642 Loss, gain 162, 13 155487276-155656642 Loss 78 155360077–155640397 Loss, gain 3
        155905880–155936772 Loss 1
        155936817–155937275 Gain 2
        155972933–155973160 Gain 1
        156313490–156314132 Loss 1
        156657191–156690829 Loss 1
        156690978–156714131 Gain 6
1 178798269- 179550475 Loss, gain 10, 5 178798269-178815370 Loss 1   
    178798269-179550475 Gain 3    
2 106062109-106063373 Gain 20 106062109-106064917 Loss 7   
3 65705932- 65951800 Loss, gain 27, 29 65705932-66065643 Gain 50   
4 52424614-52612016 Gain 20 52194368-52612016 Gain 1   
5 37840041-37916448 Loss 16 37840041-37916448 Loss 5 37878731-37954286 Loss, gain 9, 8
5 88243192-88258862 Gain 57 88243192-88349479 Gain 27   
6 26086675-26126581 Gain 42 26102028-26126581 Gain 1   
6 72032729-72607543 Loss, gain 136, 11 71956823-72607543 Loss 71 71977669-73390784 Loss, gain 5, 1
7 31406445-31520977 Loss 17 31406445-31529855 Loss 10   
7 52610482-52677786 Gain 37 52610482-52677786 Gain 39 52617898-52737112 Loss, gain 5 ,4
7 73083306-73197149 Loss, gain 14, 3 73083306-73197149 Loss 3 73056824-73699458 Loss, gain 14, 14
8 4280605-4621044 Loss, gain 37, 40 4183178-4430473 Loss 2 4381193-4648028 Gain 2
9 31574454-31574969 Loss 4   
10 674485-1271225 Loss, gain 1, 6 674485-1141923 Gain 10   
11 54645681-54812394 Loss 47 54640169-54812394 Loss 1   
12 12524489-14777981 Loss, gain 108, 116 12524489-13488187 Loss 32 12314908-15866355 Loss, gain 12, 13
    13945011-14777981 Loss 114    
18 11660478-12399073 Gain 2   
20 32059082-32210308 Loss, gain 24, 3 32059082-32250493 Gain 9 32031829-32033708 Loss 1
24 32416012-32628728 Loss, gain 1, 11 32416012-32628728 Gain 20   
25 26318531-27125754 Loss, gain 137, 4 26318531-26942120 Loss 99 26274719-26980393 Loss, gain 2, 2
  1. Overlapping CNV regions from each study are shown in base pairs. Copy number (CN) and number of samples are displayed for all studies.