miRNA display CGI


Results 1 - 15 of 15 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
20762 5' -56.1 NC_004689.1 + 67712 0.66 0.703822
Target:  5'- -cGCC-CAGCCGuaGC-GCgAUGUUGGCGc -3'
miRNA:   3'- gaCGGaGUCGGU--UGuCG-UACAGCCGU- -5'
20762 5' -56.1 NC_004689.1 + 28703 0.66 0.689831
Target:  5'- -gGUCUCGGCaguauccaccguauCGGCGGCuugGUUGGCAa -3'
miRNA:   3'- gaCGGAGUCG--------------GUUGUCGua-CAGCCGU- -5'
20762 5' -56.1 NC_004689.1 + 41465 0.66 0.682258
Target:  5'- -gGUCUCGGaCCAcgaccGCAGCGUcUCGGUg -3'
miRNA:   3'- gaCGGAGUC-GGU-----UGUCGUAcAGCCGu -5'
20762 5' -56.1 NC_004689.1 + 29082 0.66 0.6714
Target:  5'- -gGCacacgaUCAGCCGugAGCAUGUUGuaGg -3'
miRNA:   3'- gaCGg-----AGUCGGUugUCGUACAGCcgU- -5'
20762 5' -56.1 NC_004689.1 + 35000 0.66 0.6714
Target:  5'- -cGCCUUGGCCGuu-GCccuUGUCGGUg -3'
miRNA:   3'- gaCGGAGUCGGUuguCGu--ACAGCCGu -5'
20762 5' -56.1 NC_004689.1 + 14297 0.68 0.59494
Target:  5'- -gGCCUCGuCC--CAGUGUGUCGGUAa -3'
miRNA:   3'- gaCGGAGUcGGuuGUCGUACAGCCGU- -5'
20762 5' -56.1 NC_004689.1 + 13966 0.69 0.488905
Target:  5'- -cGCCUCGGCCuugacCGGCuccgcGUCGGUg -3'
miRNA:   3'- gaCGGAGUCGGuu---GUCGua---CAGCCGu -5'
20762 5' -56.1 NC_004689.1 + 64597 0.7 0.467704
Target:  5'- -aGCUUgaagauuccccaaCAGCCAgggcACAGCAUGaUCGGCGg -3'
miRNA:   3'- gaCGGA-------------GUCGGU----UGUCGUAC-AGCCGU- -5'
20762 5' -56.1 NC_004689.1 + 48893 0.71 0.410842
Target:  5'- -gGCCUCGGCCugugccucGGCGGCAcGUgCGGCc -3'
miRNA:   3'- gaCGGAGUCGG--------UUGUCGUaCA-GCCGu -5'
20762 5' -56.1 NC_004689.1 + 66690 0.71 0.392561
Target:  5'- -cGCCUgAuCCAACAGCA-GUUGGCGu -3'
miRNA:   3'- gaCGGAgUcGGUUGUCGUaCAGCCGU- -5'
20762 5' -56.1 NC_004689.1 + 59966 0.74 0.280148
Target:  5'- uCUGUgUCGGCCAACAGUucGUCGGgAu -3'
miRNA:   3'- -GACGgAGUCGGUUGUCGuaCAGCCgU- -5'
20762 5' -56.1 NC_004689.1 + 27769 0.74 0.253109
Target:  5'- -cGCCcCAGUCugcgccaccCAGCAUGUCGGCAa -3'
miRNA:   3'- gaCGGaGUCGGuu-------GUCGUACAGCCGU- -5'
20762 5' -56.1 NC_004689.1 + 12561 0.75 0.246694
Target:  5'- gUG-CUCGGCCAGCAGCAUGUaaagGGUg -3'
miRNA:   3'- gACgGAGUCGGUUGUCGUACAg---CCGu -5'
20762 5' -56.1 NC_004689.1 + 35105 0.77 0.165832
Target:  5'- uCUGauccaCUguGCCAGCGGCgAUGUCGGCGu -3'
miRNA:   3'- -GACg----GAguCGGUUGUCG-UACAGCCGU- -5'
20762 5' -56.1 NC_004689.1 + 6024 1.08 0.000994
Target:  5'- uCUGCCUCAGCCAACAGCAUGUCGGCAa -3'
miRNA:   3'- -GACGGAGUCGGUUGUCGUACAGCCGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.