miRNA display CGI


Results 1 - 20 of 39 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
22417 5' -52.9 NC_005056.1 + 12016 0.66 0.723411
Target:  5'- cCGGGaca-GGCaauuuACCACCGCCAuccccgacgGCCa -3'
miRNA:   3'- -GCCCauuaUUGgu---UGGUGGCGGU---------CGG- -5'
22417 5' -52.9 NC_005056.1 + 3590 0.66 0.723411
Target:  5'- cCGGGUc---AUCggUgACgGCCAGCCc -3'
miRNA:   3'- -GCCCAuuauUGGuuGgUGgCGGUCGG- -5'
22417 5' -52.9 NC_005056.1 + 26964 0.66 0.723411
Target:  5'- --cGUGAUGugCGugCgcGCCGCCAGgCa -3'
miRNA:   3'- gccCAUUAUugGUugG--UGGCGGUCgG- -5'
22417 5' -52.9 NC_005056.1 + 12933 0.66 0.689453
Target:  5'- uCGGGcggGAUAuucuggcuaaAUCGACCGuuGCC-GCCg -3'
miRNA:   3'- -GCCCa--UUAU----------UGGUUGGUggCGGuCGG- -5'
22417 5' -52.9 NC_005056.1 + 9606 0.67 0.665334
Target:  5'- uGGGUc--AGCCAcugaaGCCagucggugcacauGCCGCCGGUCu -3'
miRNA:   3'- gCCCAuuaUUGGU-----UGG-------------UGGCGGUCGG- -5'
22417 5' -52.9 NC_005056.1 + 5625 0.67 0.654944
Target:  5'- gCGGGUAu---CCAcagACuCACCGgCAGCg -3'
miRNA:   3'- -GCCCAUuauuGGU---UG-GUGGCgGUCGg -5'
22417 5' -52.9 NC_005056.1 + 8301 0.67 0.654944
Target:  5'- cCGGGcgcugGugCAACCGgCGCaCAGCa -3'
miRNA:   3'- -GCCCauua-UugGUUGGUgGCG-GUCGg -5'
22417 5' -52.9 NC_005056.1 + 76 0.67 0.654944
Target:  5'- -------aAAUCAgcACCACCGCCAGCg -3'
miRNA:   3'- gcccauuaUUGGU--UGGUGGCGGUCGg -5'
22417 5' -52.9 NC_005056.1 + 5499 0.67 0.643378
Target:  5'- aCGGGcAAUcuCCAGCgCACCGgCAauaucGCCg -3'
miRNA:   3'- -GCCCaUUAuuGGUUG-GUGGCgGU-----CGG- -5'
22417 5' -52.9 NC_005056.1 + 20363 0.67 0.643378
Target:  5'- cCGGG----GACaCAGCUugACCGCCAGUUa -3'
miRNA:   3'- -GCCCauuaUUG-GUUGG--UGGCGGUCGG- -5'
22417 5' -52.9 NC_005056.1 + 18446 0.67 0.631801
Target:  5'- gCGGGUAuUAauucccacagcaGCCAGuucCCGCUGCUGGCg -3'
miRNA:   3'- -GCCCAUuAU------------UGGUU---GGUGGCGGUCGg -5'
22417 5' -52.9 NC_005056.1 + 4286 0.67 0.631801
Target:  5'- -uGGUGuc-ACCGgcuCCAUCGCCAGCa -3'
miRNA:   3'- gcCCAUuauUGGUu--GGUGGCGGUCGg -5'
22417 5' -52.9 NC_005056.1 + 10580 0.67 0.620224
Target:  5'- aGGGUAcgGG-CGACCGCCuCCuGCUg -3'
miRNA:   3'- gCCCAUuaUUgGUUGGUGGcGGuCGG- -5'
22417 5' -52.9 NC_005056.1 + 12462 0.67 0.620224
Target:  5'- aCGGGaAAUAuACCGcacaggacgccACCACCGCgcgaaaaGGCCu -3'
miRNA:   3'- -GCCCaUUAU-UGGU-----------UGGUGGCGg------UCGG- -5'
22417 5' -52.9 NC_005056.1 + 9026 0.67 0.620224
Target:  5'- uCGGGUGAUGGCacagaaAGCC-CCGgaCGGCa -3'
miRNA:   3'- -GCCCAUUAUUGg-----UUGGuGGCg-GUCGg -5'
22417 5' -52.9 NC_005056.1 + 5495 0.68 0.608659
Target:  5'- cCGGGUAAacACCGccgcACC-CCGCCGuaCa -3'
miRNA:   3'- -GCCCAUUauUGGU----UGGuGGCGGUcgG- -5'
22417 5' -52.9 NC_005056.1 + 1742 0.68 0.608659
Target:  5'- aCGGGUcGUAACCAAUCcagACCGggcgggAGCCg -3'
miRNA:   3'- -GCCCAuUAUUGGUUGG---UGGCgg----UCGG- -5'
22417 5' -52.9 NC_005056.1 + 6836 0.68 0.608659
Target:  5'- gGGGUGAUGGgUucACCACCGgCAagcaccuuGCCg -3'
miRNA:   3'- gCCCAUUAUUgGu-UGGUGGCgGU--------CGG- -5'
22417 5' -52.9 NC_005056.1 + 6619 0.68 0.585606
Target:  5'- uGGGUGcgGUGcuGCCAcacggcACCGCCGUCGaacuGCCc -3'
miRNA:   3'- gCCCAU--UAU--UGGU------UGGUGGCGGU----CGG- -5'
22417 5' -52.9 NC_005056.1 + 21697 0.68 0.585606
Target:  5'- uCGGGUcuuuuGUGugUAACCACUuuGCCGuuacGCCg -3'
miRNA:   3'- -GCCCAu----UAUugGUUGGUGG--CGGU----CGG- -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.