miRNA display CGI


Results 1 - 20 of 22 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
15693 3' -60.8 NC_004065.1 + 93611 0.66 0.81058
Target:  5'- -aGCGAcGGGcgggucugGCCGGCGGCG-GG-CCGg -3'
miRNA:   3'- ugCGCU-CCC--------UGGUCGUCGCaCCaGGU- -5'
15693 3' -60.8 NC_004065.1 + 68217 0.66 0.802207
Target:  5'- cUGCGGGGGuuucACCGGCAGCGacugcguggcGGUgCGg -3'
miRNA:   3'- uGCGCUCCC----UGGUCGUCGCa---------CCAgGU- -5'
15693 3' -60.8 NC_004065.1 + 27688 0.66 0.802207
Target:  5'- gACGCGGuGGGACgGGCAGaGgcugGGUgCGa -3'
miRNA:   3'- -UGCGCU-CCCUGgUCGUCgCa---CCAgGU- -5'
15693 3' -60.8 NC_004065.1 + 27647 0.66 0.802207
Target:  5'- uGCGCGGGGGugCuGCGGCcc-GUCa- -3'
miRNA:   3'- -UGCGCUCCCugGuCGUCGcacCAGgu -5'
15693 3' -60.8 NC_004065.1 + 151231 0.66 0.793697
Target:  5'- gGCGCGGGGaaGACCucgAGCGUccaGGUCCu -3'
miRNA:   3'- -UGCGCUCC--CUGGucgUCGCA---CCAGGu -5'
15693 3' -60.8 NC_004065.1 + 59143 0.66 0.793697
Target:  5'- aGCGCGAGGcGACgA-CGGCGaGaGUCCGa -3'
miRNA:   3'- -UGCGCUCC-CUGgUcGUCGCaC-CAGGU- -5'
15693 3' -60.8 NC_004065.1 + 150216 0.66 0.767411
Target:  5'- -aGCGGauccGGGCCAGCGGCGUcGUCa- -3'
miRNA:   3'- ugCGCUc---CCUGGUCGUCGCAcCAGgu -5'
15693 3' -60.8 NC_004065.1 + 87967 0.66 0.765621
Target:  5'- gACGCaucGGGACCGGCAGCGauacuaccggcgGGUgCu -3'
miRNA:   3'- -UGCGcu-CCCUGGUCGUCGCa-----------CCAgGu -5'
15693 3' -60.8 NC_004065.1 + 65901 0.67 0.758422
Target:  5'- cUGCGGcGGcAgCGGCAGCG-GGUCCGu -3'
miRNA:   3'- uGCGCUcCC-UgGUCGUCGCaCCAGGU- -5'
15693 3' -60.8 NC_004065.1 + 121354 0.67 0.758422
Target:  5'- uACGU---GGACCAGguGacgGUGGUCCAg -3'
miRNA:   3'- -UGCGcucCCUGGUCguCg--CACCAGGU- -5'
15693 3' -60.8 NC_004065.1 + 150331 0.67 0.752981
Target:  5'- uCGUGGagcugauggagaagcGGGACCGGCAG-GUGGacgCCAa -3'
miRNA:   3'- uGCGCU---------------CCCUGGUCGUCgCACCa--GGU- -5'
15693 3' -60.8 NC_004065.1 + 90377 0.67 0.749334
Target:  5'- cCGCGGGGccuccGGCCGGCGGCGccagcgGGUUgAa -3'
miRNA:   3'- uGCGCUCC-----CUGGUCGUCGCa-----CCAGgU- -5'
15693 3' -60.8 NC_004065.1 + 127875 0.67 0.740154
Target:  5'- aGCGCGAGcGGugCAcGUagAGCGccGGUCCc -3'
miRNA:   3'- -UGCGCUC-CCugGU-CG--UCGCa-CCAGGu -5'
15693 3' -60.8 NC_004065.1 + 96278 0.67 0.740154
Target:  5'- -gGCGGGGcGGCCAGgGGCGUcacggacgccGUCCAc -3'
miRNA:   3'- ugCGCUCC-CUGGUCgUCGCAc---------CAGGU- -5'
15693 3' -60.8 NC_004065.1 + 148835 0.69 0.644983
Target:  5'- uGCGCGuuGGGGAUCAGCucucccgacucGGUGUGGaaCCAg -3'
miRNA:   3'- -UGCGC--UCCCUGGUCG-----------UCGCACCa-GGU- -5'
15693 3' -60.8 NC_004065.1 + 113642 0.69 0.625606
Target:  5'- uCGCGAGGGAgCcGCAgGCGUucguccugagGGUCCu -3'
miRNA:   3'- uGCGCUCCCUgGuCGU-CGCA----------CCAGGu -5'
15693 3' -60.8 NC_004065.1 + 130528 0.7 0.587918
Target:  5'- uGCGCGccAGGGACCccaacGGCGGCaucucgcacgucuccUGGUCCAa -3'
miRNA:   3'- -UGCGC--UCCCUGG-----UCGUCGc--------------ACCAGGU- -5'
15693 3' -60.8 NC_004065.1 + 164963 0.7 0.586956
Target:  5'- cGCGUGGuGGGACCGGCGGCGgcGG-Cg- -3'
miRNA:   3'- -UGCGCU-CCCUGGUCGUCGCa-CCaGgu -5'
15693 3' -60.8 NC_004065.1 + 130860 0.71 0.520647
Target:  5'- aGCGCGAacuGGaGACCAGCcucgggcgccGGCGUgaGGUCCu -3'
miRNA:   3'- -UGCGCU---CC-CUGGUCG----------UCGCA--CCAGGu -5'
15693 3' -60.8 NC_004065.1 + 61681 0.72 0.466249
Target:  5'- aGCGCGAGGGGuCC-GCAGCGcgucacGUCCGc -3'
miRNA:   3'- -UGCGCUCCCU-GGuCGUCGCac----CAGGU- -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.