miRNA display CGI


Results 1 - 20 of 90 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
23436 3' -65.8 NC_005259.1 + 67981 0.84 0.014674
Target:  5'- gCGGCGuGGCCACCGCCGcgagcGUcgacuugcccuccuGCGGCGGCa -3'
miRNA:   3'- -GCCGC-CCGGUGGCGGC-----CA--------------UGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 43961 0.77 0.05214
Target:  5'- gGGCgGGGCCGCCGCCuGaccgAgGGCGGUg -3'
miRNA:   3'- gCCG-CCCGGUGGCGGcCa---UgCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 738 0.76 0.057349
Target:  5'- cCGGCGGuGCCuacGCCGCCGGUgccuaccGCguccaccgcgccgaGGCGGCu -3'
miRNA:   3'- -GCCGCC-CGG---UGGCGGCCA-------UG--------------CCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 31249 0.76 0.057958
Target:  5'- gCGGCGGuGCCGCCccacacGCCGcaguagGCGGUGGCg -3'
miRNA:   3'- -GCCGCC-CGGUGG------CGGCca----UGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 5711 0.75 0.067881
Target:  5'- -cGCcaaGGCCAgCGCCGG-ACGGCGGCc -3'
miRNA:   3'- gcCGc--CCGGUgGCGGCCaUGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 66258 0.75 0.071539
Target:  5'- -aGCGcGGCC-CgCGCCGG-GCGGCGGCu -3'
miRNA:   3'- gcCGC-CCGGuG-GCGGCCaUGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 29999 0.74 0.082384
Target:  5'- aCGGUGGucaccacgacaagguGaCCACCGCCGGgGCGGUGGg -3'
miRNA:   3'- -GCCGCC---------------C-GGUGGCGGCCaUGCCGCCg -5'
23436 3' -65.8 NC_005259.1 + 66619 0.74 0.082384
Target:  5'- gGGCGguauuucucgucccuGGCCACCgcucggauugcuGCCGGU-CGGCGGUg -3'
miRNA:   3'- gCCGC---------------CCGGUGG------------CGGCCAuGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 8334 0.74 0.082815
Target:  5'- aCGGCGaucagccggucacGCUGCUGCCGGUAucgcuCGGCGGCg -3'
miRNA:   3'- -GCCGCc------------CGGUGGCGGCCAU-----GCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 37045 0.74 0.083682
Target:  5'- uGGUGcccGCCACCGCCc--ACGGCGGCg -3'
miRNA:   3'- gCCGCc--CGGUGGCGGccaUGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 49633 0.74 0.085888
Target:  5'- uCGGCGGcaGCCGC-GUCGGcgAUGGCGGCc -3'
miRNA:   3'- -GCCGCC--CGGUGgCGGCCa-UGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 40134 0.73 0.097775
Target:  5'- uGGCGGGCgagcuCGCCGUCGGUuguCGGUgcccgccccGGCa -3'
miRNA:   3'- gCCGCCCG-----GUGGCGGCCAu--GCCG---------CCG- -5'
23436 3' -65.8 NC_005259.1 + 13419 0.73 0.105637
Target:  5'- uGGCcgGGGUCGCCGCCGGggccGCGcuaGGCg -3'
miRNA:   3'- gCCG--CCCGGUGGCGGCCa---UGCcg-CCG- -5'
23436 3' -65.8 NC_005259.1 + 60286 0.73 0.108109
Target:  5'- gGGC-GGCCAucgUCGUCGGUGCGGCcacggacGGCg -3'
miRNA:   3'- gCCGcCCGGU---GGCGGCCAUGCCG-------CCG- -5'
23436 3' -65.8 NC_005259.1 + 29947 0.72 0.111205
Target:  5'- gCGGCccGGUCGCgGCUGGUGgGGCGGg -3'
miRNA:   3'- -GCCGc-CCGGUGgCGGCCAUgCCGCCg -5'
23436 3' -65.8 NC_005259.1 + 25906 0.72 0.123172
Target:  5'- aGGauGGCCgccugagccgccGCCGCCGGUcCGGUGaGCg -3'
miRNA:   3'- gCCgcCCGG------------UGGCGGCCAuGCCGC-CG- -5'
23436 3' -65.8 NC_005259.1 + 60145 0.72 0.126346
Target:  5'- gCGGCcuuGGCCGCCGCCucagcGGccucACgGGCGGCg -3'
miRNA:   3'- -GCCGc--CCGGUGGCGG-----CCa---UG-CCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 62719 0.72 0.129595
Target:  5'- aGGCGGGggaucUCGCuCGaCCGGacCGGCGGCa -3'
miRNA:   3'- gCCGCCC-----GGUG-GC-GGCCauGCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 13086 0.71 0.132922
Target:  5'- cCGGCcauccGGuGCCACCGaccCCGGcccgcuCGGCGGCu -3'
miRNA:   3'- -GCCG-----CC-CGGUGGC---GGCCau----GCCGCCG- -5'
23436 3' -65.8 NC_005259.1 + 4482 0.71 0.134274
Target:  5'- uCGGCGGuggaccauggugaucGCCACCgcGCCGGgagugGCGcugcGCGGCa -3'
miRNA:   3'- -GCCGCC---------------CGGUGG--CGGCCa----UGC----CGCCG- -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.