miRNA display CGI


Results 1 - 16 of 16 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
31798 3' -61.1 NC_006938.1 + 62743 0.66 0.502469
Target:  5'- uGGAGGCCUCgggcaCGGaGG-CGGCcacACCGg -3'
miRNA:   3'- -CCUCUGGAGg----GCCaCCaGCCGc--UGGC- -5'
31798 3' -61.1 NC_006938.1 + 5583 0.66 0.502469
Target:  5'- gGGuGGCgCgUCCUGGUGGuccUCGGCGuACuCGg -3'
miRNA:   3'- -CCuCUG-G-AGGGCCACC---AGCCGC-UG-GC- -5'
31798 3' -61.1 NC_006938.1 + 52233 0.66 0.492789
Target:  5'- cGGAGGgCUCuUUGGUGGaggaGGUGGCCu -3'
miRNA:   3'- -CCUCUgGAG-GGCCACCag--CCGCUGGc -5'
31798 3' -61.1 NC_006938.1 + 25309 0.66 0.469917
Target:  5'- cGAGACCUUCCGGgaugcccgaaCGGuCGACUGg -3'
miRNA:   3'- cCUCUGGAGGGCCacca------GCC-GCUGGC- -5'
31798 3' -61.1 NC_006938.1 + 21674 0.67 0.464284
Target:  5'- cGAGAgCUCCaCGGacUGGUCGGCcuugugaACCa -3'
miRNA:   3'- cCUCUgGAGG-GCC--ACCAGCCGc------UGGc -5'
31798 3' -61.1 NC_006938.1 + 62032 0.67 0.445766
Target:  5'- aGGGGACCaCCUGGagaauguuucUGGaCGGCGuCCa -3'
miRNA:   3'- -CCUCUGGaGGGCC----------ACCaGCCGCuGGc -5'
31798 3' -61.1 NC_006938.1 + 27783 0.67 0.436664
Target:  5'- --cGACCUUCCaGGUGaa-GGCGACCu -3'
miRNA:   3'- ccuCUGGAGGG-CCACcagCCGCUGGc -5'
31798 3' -61.1 NC_006938.1 + 1468 0.67 0.427669
Target:  5'- aGGAGcuGCCUCCCGaG-GGcgaGGUGGCCc -3'
miRNA:   3'- -CCUC--UGGAGGGC-CaCCag-CCGCUGGc -5'
31798 3' -61.1 NC_006938.1 + 2466 0.67 0.427669
Target:  5'- -cAGAaCUCUCGGUGGgccaugUCGGCGACgGc -3'
miRNA:   3'- ccUCUgGAGGGCCACC------AGCCGCUGgC- -5'
31798 3' -61.1 NC_006938.1 + 3646 0.68 0.384398
Target:  5'- -aAGGCgUCCgGGUGGaUCGGUGGCa- -3'
miRNA:   3'- ccUCUGgAGGgCCACC-AGCCGCUGgc -5'
31798 3' -61.1 NC_006938.1 + 30969 0.7 0.295764
Target:  5'- uGAGAgCUCCUucagaaugugcucggGGUcGUCGGCGGCCa -3'
miRNA:   3'- cCUCUgGAGGG---------------CCAcCAGCCGCUGGc -5'
31798 3' -61.1 NC_006938.1 + 38398 0.7 0.29301
Target:  5'- uGGAcuCCUCuCCGGUGG-CGGCcuGACCu -3'
miRNA:   3'- -CCUcuGGAG-GGCCACCaGCCG--CUGGc -5'
31798 3' -61.1 NC_006938.1 + 9114 0.7 0.29301
Target:  5'- ---cACCUCCCauccgcauGGUGG-CGGCGGCCu -3'
miRNA:   3'- ccucUGGAGGG--------CCACCaGCCGCUGGc -5'
31798 3' -61.1 NC_006938.1 + 43418 0.72 0.236255
Target:  5'- uGGcAGGCCUCCCcgugggaggcgGGgacauacgcGGUCGGCGACUa -3'
miRNA:   3'- -CC-UCUGGAGGG-----------CCa--------CCAGCCGCUGGc -5'
31798 3' -61.1 NC_006938.1 + 23238 0.8 0.066093
Target:  5'- gGGcGGACCcUUCGaGUGGUCGGCGACCGa -3'
miRNA:   3'- -CC-UCUGGaGGGC-CACCAGCCGCUGGC- -5'
31798 3' -61.1 NC_006938.1 + 8284 1.1 0.000345
Target:  5'- gGGAGACCUCCCGGUGGUCGGCGACCGg -3'
miRNA:   3'- -CCUCUGGAGGGCCACCAGCCGCUGGC- -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.