miRNA display CGI


Results 1 - 20 of 40 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
29976 5' -57 NC_006273.1 + 39148 0.66 0.946391
Target:  5'- -uUUCACGaCGCCGGGAaagccgGGCUGcGGCGg -3'
miRNA:   3'- ccAGGUGC-GUGGCUCU------CUGACuCCGU- -5'
29976 5' -57 NC_006273.1 + 122628 0.66 0.942084
Target:  5'- cGcCCA-GCACCGAGAGcuGCUGuuGCGa -3'
miRNA:   3'- cCaGGUgCGUGGCUCUC--UGACucCGU- -5'
29976 5' -57 NC_006273.1 + 78665 0.66 0.937559
Target:  5'- --aCCGCGCACgCGAGAaggGGCcGGGGUc -3'
miRNA:   3'- ccaGGUGCGUG-GCUCU---CUGaCUCCGu -5'
29976 5' -57 NC_006273.1 + 162966 0.66 0.937559
Target:  5'- gGGUCUgcacgacgagACGCGCgGAgGAGGCUcGAcGGCGg -3'
miRNA:   3'- -CCAGG----------UGCGUGgCU-CUCUGA-CU-CCGU- -5'
29976 5' -57 NC_006273.1 + 194899 0.66 0.932814
Target:  5'- uGUCC-CGCACCGgcggcggucGGGGugUGucggGGGCGc -3'
miRNA:   3'- cCAGGuGCGUGGC---------UCUCugAC----UCCGU- -5'
29976 5' -57 NC_006273.1 + 54246 0.66 0.932814
Target:  5'- aGUCCugGC-CCGAaugacgacGAGACagagcccGAGGCGa -3'
miRNA:   3'- cCAGGugCGuGGCU--------CUCUGa------CUCCGU- -5'
29976 5' -57 NC_006273.1 + 6 0.66 0.932814
Target:  5'- uGUCC-CGCACCGgcggcggucGGGGugUGucggGGGCGc -3'
miRNA:   3'- cCAGGuGCGUGGC---------UCUCugAC----UCCGU- -5'
29976 5' -57 NC_006273.1 + 234837 0.66 0.932814
Target:  5'- uGUCC-CGCACCGgcggcggucGGGGugUGucggGGGCGc -3'
miRNA:   3'- cCAGGuGCGUGGC---------UCUCugAC----UCCGU- -5'
29976 5' -57 NC_006273.1 + 219645 0.66 0.929861
Target:  5'- cGUCCACGUggcuucgccagcgucGCCaAGccGAUUGAGGCAa -3'
miRNA:   3'- cCAGGUGCG---------------UGGcUCu-CUGACUCCGU- -5'
29976 5' -57 NC_006273.1 + 165695 0.66 0.927848
Target:  5'- aGUCUGCgGCACgaUGAGAGugUGAcGGUAa -3'
miRNA:   3'- cCAGGUG-CGUG--GCUCUCugACU-CCGU- -5'
29976 5' -57 NC_006273.1 + 1702 0.66 0.927848
Target:  5'- --gCUGCGCGCCGAgGAGGC-GAcGGCGc -3'
miRNA:   3'- ccaGGUGCGUGGCU-CUCUGaCU-CCGU- -5'
29976 5' -57 NC_006273.1 + 208366 0.66 0.927848
Target:  5'- -uUCUACGCGCCGcGAGcuCgucgGAGGCu -3'
miRNA:   3'- ccAGGUGCGUGGCuCUCu-Ga---CUCCGu -5'
29976 5' -57 NC_006273.1 + 134925 0.66 0.927848
Target:  5'- -aUCCugGacCACCaGGAcGGCUGGGGCGa -3'
miRNA:   3'- ccAGGugC--GUGGcUCU-CUGACUCCGU- -5'
29976 5' -57 NC_006273.1 + 101984 0.67 0.913336
Target:  5'- cGG-CCACGCagcaggcGCCGuGGGGCUGAaagaggaggacguggGGCGc -3'
miRNA:   3'- -CCaGGUGCG-------UGGCuCUCUGACU---------------CCGU- -5'
29976 5' -57 NC_006273.1 + 141165 0.67 0.911624
Target:  5'- --gCCGCggacuGCGCCGGGGGGCggcGGGCAc -3'
miRNA:   3'- ccaGGUG-----CGUGGCUCUCUGac-UCCGU- -5'
29976 5' -57 NC_006273.1 + 194859 0.68 0.886942
Target:  5'- cGGUCCccgugagcgguaGCGCGCCGGGucGcCUGuccGGCAg -3'
miRNA:   3'- -CCAGG------------UGCGUGGCUCu-CuGACu--CCGU- -5'
29976 5' -57 NC_006273.1 + 49992 0.68 0.873339
Target:  5'- cGG-CCGCGaCGgCGAGGGA--GAGGCAg -3'
miRNA:   3'- -CCaGGUGC-GUgGCUCUCUgaCUCCGU- -5'
29976 5' -57 NC_006273.1 + 144167 0.68 0.866236
Target:  5'- --cUCGCGCGCCGAGAucGCcGAGGCc -3'
miRNA:   3'- ccaGGUGCGUGGCUCUc-UGaCUCCGu -5'
29976 5' -57 NC_006273.1 + 72148 0.69 0.835928
Target:  5'- ---aCGCGgACUGcgaGGAGGCUGAGGCGc -3'
miRNA:   3'- ccagGUGCgUGGC---UCUCUGACUCCGU- -5'
29976 5' -57 NC_006273.1 + 56247 0.69 0.83354
Target:  5'- -aUCCGCGCgggacgucGCUGAGGGacgguggcuggucuGCUGGGGCGg -3'
miRNA:   3'- ccAGGUGCG--------UGGCUCUC--------------UGACUCCGU- -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.