miRNA display CGI


Results 1 - 20 of 49 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
1401 3' -55.9 NC_001335.1 + 40335 1 0.003594
Target:  5'- uACGCACACCGAC-UGACAGCCACCGAg -3'
miRNA:   3'- -UGCGUGUGGCUGaACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 50691 0.88 0.026427
Target:  5'- cCGUAucCGCUGACUUGACAGCCACCGAc -3'
miRNA:   3'- uGCGU--GUGGCUGAACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 50799 0.83 0.058356
Target:  5'- uCGCugGgCCugaGACUUGACAGCCACCGAa -3'
miRNA:   3'- uGCGugU-GG---CUGAACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 51489 0.78 0.129851
Target:  5'- uUGCaACACCaaaacggcccGCUUGACAGCCACCGAa -3'
miRNA:   3'- uGCG-UGUGGc---------UGAACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 50158 0.78 0.141156
Target:  5'- uGCGUgACGCUGACUUGACAGaCACCGu -3'
miRNA:   3'- -UGCG-UGUGGCUGAACUGUCgGUGGCu -5'
1401 3' -55.9 NC_001335.1 + 42628 0.77 0.166504
Target:  5'- uCGguCugUGACcaacUUGACAGCCACCGAg -3'
miRNA:   3'- uGCguGugGCUG----AACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 28726 0.76 0.171107
Target:  5'- gGCGCugAUuacuaaggaggaCaACUUGACAGCCACCGAa -3'
miRNA:   3'- -UGCGugUG------------GcUGAACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 4923 0.76 0.19586
Target:  5'- -aGCAuCACCGGCUUGAUcggcaaGGCCGCUGGc -3'
miRNA:   3'- ugCGU-GUGGCUGAACUG------UCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 50430 0.75 0.206609
Target:  5'- gGCGCuuuguauCCaacaACUUGACAGCCACCGAa -3'
miRNA:   3'- -UGCGugu----GGc---UGAACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 17452 0.74 0.241948
Target:  5'- -aGCGCGCCGAUga-GCGcGCCGCCGAu -3'
miRNA:   3'- ugCGUGUGGCUGaacUGU-CGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 12302 0.74 0.254145
Target:  5'- gACGC-CACCGaagccugauccagGCUUGACAuCCACCGGg -3'
miRNA:   3'- -UGCGuGUGGC-------------UGAACUGUcGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 51732 0.73 0.281469
Target:  5'- -aGgGCACCaauuugcgauuagGGCUUGACAGCCACCc- -3'
miRNA:   3'- ugCgUGUGG-------------CUGAACUGUCGGUGGcu -5'
1401 3' -55.9 NC_001335.1 + 18263 0.73 0.285044
Target:  5'- aACGCGCuguccgucguuggccGCUGACUUGACAuCCACCa- -3'
miRNA:   3'- -UGCGUG---------------UGGCUGAACUGUcGGUGGcu -5'
1401 3' -55.9 NC_001335.1 + 22755 0.72 0.311842
Target:  5'- cCGCACcaACCccgcaGACgagaaGACAGCCACCGAc -3'
miRNA:   3'- uGCGUG--UGG-----CUGaa---CUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 42979 0.71 0.352163
Target:  5'- -aGguCACC---UUGACAGCCACCGAu -3'
miRNA:   3'- ugCguGUGGcugAACUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 6069 0.71 0.369294
Target:  5'- cGCGCugGCCGGCUacucgcaGGgAGCCAUCGu -3'
miRNA:   3'- -UGCGugUGGCUGAa------CUgUCGGUGGCu -5'
1401 3' -55.9 NC_001335.1 + 7396 0.71 0.378071
Target:  5'- aACGCccacauccccgGCACCGA---GACGGUCGCCGAg -3'
miRNA:   3'- -UGCG-----------UGUGGCUgaaCUGUCGGUGGCU- -5'
1401 3' -55.9 NC_001335.1 + 13613 0.7 0.405231
Target:  5'- cCGCAuCACCGACgagGGCuacuucccGGCCACCa- -3'
miRNA:   3'- uGCGU-GUGGCUGaa-CUG--------UCGGUGGcu -5'
1401 3' -55.9 NC_001335.1 + 14854 0.7 0.405231
Target:  5'- -gGCugAUCccaACUUGACAGCCACCc- -3'
miRNA:   3'- ugCGugUGGc--UGAACUGUCGGUGGcu -5'
1401 3' -55.9 NC_001335.1 + 46285 0.7 0.424006
Target:  5'- cGCGCugACCGug--GGCauAGCCGCUGAg -3'
miRNA:   3'- -UGCGugUGGCugaaCUG--UCGGUGGCU- -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.