miRNA display CGI


Results 1 - 20 of 60 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
28037 3' -62.1 NC_005887.1 + 792 0.66 0.284923
Target:  5'- gUCUCGGC-GCUGGCugacuucgCGUgcGCGCCg -3'
miRNA:   3'- aAGGGCCGuCGGCCGca------GCAa-CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 1000 0.66 0.31413
Target:  5'- cUUCCCGGCGG-CGcGCGgaUCGUacucaaccgGCGUCa -3'
miRNA:   3'- -AAGGGCCGUCgGC-CGC--AGCAa--------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 1060 0.66 0.277965
Target:  5'- -gCCCGGCGGCagcaGcGCGcccgugcgcaggUCGacgGCGCCa -3'
miRNA:   3'- aaGGGCCGUCGg---C-CGC------------AGCaa-CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 1583 0.68 0.227117
Target:  5'- --gCCGGCucGgCGGCGcgCGgcGCGCCa -3'
miRNA:   3'- aagGGCCGu-CgGCCGCa-GCaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 1660 0.67 0.245197
Target:  5'- cUCCUGcCAGCCGuGCG-CGc-GCGCCa -3'
miRNA:   3'- aAGGGCcGUCGGC-CGCaGCaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 1919 0.72 0.119727
Target:  5'- cUUUCGGCAGCCgGGCGgCGUcaUGCGUg -3'
miRNA:   3'- aAGGGCCGUCGG-CCGCaGCA--ACGCGg -5'
28037 3' -62.1 NC_005887.1 + 4898 0.66 0.306622
Target:  5'- gUCgCCGagGGCCGGCGcgagguguUCG-UGCGCCu -3'
miRNA:   3'- aAG-GGCcgUCGGCCGC--------AGCaACGCGG- -5'
28037 3' -62.1 NC_005887.1 + 5132 0.66 0.292018
Target:  5'- -gCUCGGCAugaccgcgcuGCCcGaCGUCGgcGCGCCg -3'
miRNA:   3'- aaGGGCCGU----------CGGcC-GCAGCaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 5410 0.69 0.1995
Target:  5'- --aCCGGCGGgCGGCGcCGcaGCGaCCg -3'
miRNA:   3'- aagGGCCGUCgGCCGCaGCaaCGC-GG- -5'
28037 3' -62.1 NC_005887.1 + 6177 0.68 0.221345
Target:  5'- aUCCCGGuCGGCaCGGUGac---GCGCCg -3'
miRNA:   3'- aAGGGCC-GUCG-GCCGCagcaaCGCGG- -5'
28037 3' -62.1 NC_005887.1 + 7285 0.67 0.250849
Target:  5'- -cCCCGGCcGCCcgcugugGGuCGUCGUguCGCCg -3'
miRNA:   3'- aaGGGCCGuCGG-------CC-GCAGCAacGCGG- -5'
28037 3' -62.1 NC_005887.1 + 7705 0.67 0.239041
Target:  5'- --aCCGGCaAGCCGGCGcgccUCGUcGaCGCg -3'
miRNA:   3'- aagGGCCG-UCGGCCGC----AGCAaC-GCGg -5'
28037 3' -62.1 NC_005887.1 + 7975 0.66 0.307366
Target:  5'- -gCCCGGCcGCCucugauacgcggGGCGcUCGUcuccagccguggccgGCGCCa -3'
miRNA:   3'- aaGGGCCGuCGG------------CCGC-AGCAa--------------CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 10627 0.74 0.074566
Target:  5'- cUUCUCGcGgAGCCugggcGGCGUCGUUGgGCCa -3'
miRNA:   3'- -AAGGGC-CgUCGG-----CCGCAGCAACgCGG- -5'
28037 3' -62.1 NC_005887.1 + 11302 0.68 0.233015
Target:  5'- cUCgCaGCGGCCGGC-UCGgcagcgaGCGCCg -3'
miRNA:   3'- aAGgGcCGUCGGCCGcAGCaa-----CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 11400 0.74 0.081132
Target:  5'- --gCUGGCGGCCGGCGccgccaaggcaUCGUcugaGCGCCa -3'
miRNA:   3'- aagGGCCGUCGGCCGC-----------AGCAa---CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 11776 0.68 0.23541
Target:  5'- aUCUCGGCGGCguccucgcugcucggCGGCGUCGguucguaCGCUa -3'
miRNA:   3'- aAGGGCCGUCG---------------GCCGCAGCaac----GCGG- -5'
28037 3' -62.1 NC_005887.1 + 11871 0.67 0.245197
Target:  5'- -gCUCGGCGGUCuuuCGUCGUUcggcaGCGCCg -3'
miRNA:   3'- aaGGGCCGUCGGcc-GCAGCAA-----CGCGG- -5'
28037 3' -62.1 NC_005887.1 + 13613 0.69 0.184369
Target:  5'- cUgCUGGCAGCgCGGCG-CGcgGCgGCCg -3'
miRNA:   3'- aAgGGCCGUCG-GCCGCaGCaaCG-CGG- -5'
28037 3' -62.1 NC_005887.1 + 14639 0.75 0.066601
Target:  5'- cUCaCGGCAGCCGGCG-CGgUGCuGCCc -3'
miRNA:   3'- aAGgGCCGUCGGCCGCaGCaACG-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.