miRNA display CGI


Results 1 - 19 of 19 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
23301 3' -56.6 NC_005259.1 + 1434 0.67 0.579589
Target:  5'- -cGUGCUCGGgcUGGCaCUGCuCGCGUg -3'
miRNA:   3'- acCACGAGCUguACCG-GACG-GUGUAg -5'
23301 3' -56.6 NC_005259.1 + 8361 0.69 0.505455
Target:  5'- cGGUaucGCUCGGCGgcGGCCU-CgGCAUCg -3'
miRNA:   3'- aCCA---CGAGCUGUa-CCGGAcGgUGUAG- -5'
23301 3' -56.6 NC_005259.1 + 9578 0.66 0.65575
Target:  5'- aGGUGCUCGuCAacgucgucggucUGGCCguagagcaccGUgGCAUCg -3'
miRNA:   3'- aCCACGAGCuGU------------ACCGGa---------CGgUGUAG- -5'
23301 3' -56.6 NC_005259.1 + 12553 0.67 0.612147
Target:  5'- cGGcauUGC-CGGgGUGGCCcGCCAgAUCc -3'
miRNA:   3'- aCC---ACGaGCUgUACCGGaCGGUgUAG- -5'
23301 3' -56.6 NC_005259.1 + 13731 0.68 0.558083
Target:  5'- aGGUGC-CGugAUGGCCcgcgagauaUGCCAa--- -3'
miRNA:   3'- aCCACGaGCugUACCGG---------ACGGUguag -5'
23301 3' -56.6 NC_005259.1 + 17738 0.66 0.644857
Target:  5'- gUGGcUGCUCGACGcgauccgugaGGCC-GCCGCGc- -3'
miRNA:   3'- -ACC-ACGAGCUGUa---------CCGGaCGGUGUag -5'
23301 3' -56.6 NC_005259.1 + 18755 1.1 0.000663
Target:  5'- gUGGUGCUCGACAUGGCCUGCCACAUCg -3'
miRNA:   3'- -ACCACGAGCUGUACCGGACGGUGUAG- -5'
23301 3' -56.6 NC_005259.1 + 24299 0.67 0.583913
Target:  5'- aUGGUGCUgcugcgcgaucuaccCGACAUGGUCcgGCCuCAc- -3'
miRNA:   3'- -ACCACGA---------------GCUGUACCGGa-CGGuGUag -5'
23301 3' -56.6 NC_005259.1 + 28642 0.71 0.38054
Target:  5'- cGGUGC-CGACAccGCCgagGCCGcCGUCa -3'
miRNA:   3'- aCCACGaGCUGUacCGGa--CGGU-GUAG- -5'
23301 3' -56.6 NC_005259.1 + 30147 0.71 0.371812
Target:  5'- cGGgcaGCUCGACcgGGCCgccuacaggccGCCACAg- -3'
miRNA:   3'- aCCa--CGAGCUGuaCCGGa----------CGGUGUag -5'
23301 3' -56.6 NC_005259.1 + 42769 0.66 0.644857
Target:  5'- --cUGCUCGGCGgucucggGGCC-GCCACcgAUCa -3'
miRNA:   3'- accACGAGCUGUa------CCGGaCGGUG--UAG- -5'
23301 3' -56.6 NC_005259.1 + 46231 0.67 0.579589
Target:  5'- uUGGUcaGCUCGGCugccGCCUGaggCACGUCg -3'
miRNA:   3'- -ACCA--CGAGCUGuac-CGGACg--GUGUAG- -5'
23301 3' -56.6 NC_005259.1 + 46676 0.7 0.426177
Target:  5'- cGGcgaGCUCGGCcUGaGCCgccGCCGCGUCc -3'
miRNA:   3'- aCCa--CGAGCUGuAC-CGGa--CGGUGUAG- -5'
23301 3' -56.6 NC_005259.1 + 47955 0.67 0.623046
Target:  5'- cGGUGC-CGA--UGGCC-GCCGCGc- -3'
miRNA:   3'- aCCACGaGCUguACCGGaCGGUGUag -5'
23301 3' -56.6 NC_005259.1 + 50683 0.71 0.389403
Target:  5'- cGGUGC-CGACGaGGCgCUGCUcguCGUCg -3'
miRNA:   3'- aCCACGaGCUGUaCCG-GACGGu--GUAG- -5'
23301 3' -56.6 NC_005259.1 + 56091 0.7 0.41679
Target:  5'- cGGUGCUCGuCggGGCCa-CCGCGUg -3'
miRNA:   3'- aCCACGAGCuGuaCCGGacGGUGUAg -5'
23301 3' -56.6 NC_005259.1 + 57453 0.66 0.633952
Target:  5'- uUGGUGCgacgcugCGGCA-GGCCggugGCaccggaCACGUCg -3'
miRNA:   3'- -ACCACGa------GCUGUaCCGGa---CG------GUGUAG- -5'
23301 3' -56.6 NC_005259.1 + 60566 0.67 0.60888
Target:  5'- cGGUGC-CGACGgucaggcGGCCcacggcgagucgggUGCCGuCAUCg -3'
miRNA:   3'- aCCACGaGCUGUa------CCGG--------------ACGGU-GUAG- -5'
23301 3' -56.6 NC_005259.1 + 67963 0.66 0.67638
Target:  5'- -uGUGCUguagcgcgcgcagCGGCGUGGCCaccGCCGCGa- -3'
miRNA:   3'- acCACGA-------------GCUGUACCGGa--CGGUGUag -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.