miRNA display CGI


Results 1 - 20 of 28 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
23221 3' -58.1 NC_005259.1 + 52765 1.08 0.000891
Target:  5'- aUCGAGCUCGUCGGUGUCGGCAGCGUGu -3'
miRNA:   3'- -AGCUCGAGCAGCCACAGCCGUCGCAC- -5'
23221 3' -58.1 NC_005259.1 + 10947 0.82 0.070052
Target:  5'- gUCGAcCUCGUCGGUGUCGGUcugaggGGUGUGg -3'
miRNA:   3'- -AGCUcGAGCAGCCACAGCCG------UCGCAC- -5'
23221 3' -58.1 NC_005259.1 + 53535 0.79 0.114748
Target:  5'- aCGGGCUCGgugccCGGUGUCGGCucgGGCGg- -3'
miRNA:   3'- aGCUCGAGCa----GCCACAGCCG---UCGCac -5'
23221 3' -58.1 NC_005259.1 + 58908 0.78 0.13629
Target:  5'- cUCGGGCUCGUCGGcggucuUGUCgucggcgggcgcgguGGCAGCGUc -3'
miRNA:   3'- -AGCUCGAGCAGCC------ACAG---------------CCGUCGCAc -5'
23221 3' -58.1 NC_005259.1 + 27364 0.74 0.221332
Target:  5'- aUCGGGCUuggugcccggcaCGgugaccggcggCGGUGUCGGCAGCGg- -3'
miRNA:   3'- -AGCUCGA------------GCa----------GCCACAGCCGUCGCac -5'
23221 3' -58.1 NC_005259.1 + 56547 0.74 0.221332
Target:  5'- cUCGGGCUCGUCGGUcUCGGguuCGGUGa- -3'
miRNA:   3'- -AGCUCGAGCAGCCAcAGCC---GUCGCac -5'
23221 3' -58.1 NC_005259.1 + 10326 0.73 0.257175
Target:  5'- aUCGGGCUCGgcgaCGGgcucggCGGCAGCGg- -3'
miRNA:   3'- -AGCUCGAGCa---GCCaca---GCCGUCGCac -5'
23221 3' -58.1 NC_005259.1 + 19202 0.72 0.290559
Target:  5'- gCGAGCUCGU-GGUGcgggCGGCGaCGUGg -3'
miRNA:   3'- aGCUCGAGCAgCCACa---GCCGUcGCAC- -5'
23221 3' -58.1 NC_005259.1 + 44400 0.72 0.29763
Target:  5'- cCGAGCaCGUCGGUGcccgccugacCGGCAGCGc- -3'
miRNA:   3'- aGCUCGaGCAGCCACa---------GCCGUCGCac -5'
23221 3' -58.1 NC_005259.1 + 59127 0.71 0.36725
Target:  5'- aUCGAGCagagCGUCGagcUCGGCAGCGg- -3'
miRNA:   3'- -AGCUCGa---GCAGCcacAGCCGUCGCac -5'
23221 3' -58.1 NC_005259.1 + 10435 0.69 0.456763
Target:  5'- gCGAGCUCGacaUCGaGUGgcucgaCGGCGGUGUc -3'
miRNA:   3'- aGCUCGAGC---AGC-CACa-----GCCGUCGCAc -5'
23221 3' -58.1 NC_005259.1 + 40140 0.69 0.485831
Target:  5'- gCGAGCUCGccgucgguugUCGGUGcccgcccCGGCAGCu-- -3'
miRNA:   3'- aGCUCGAGC----------AGCCACa------GCCGUCGcac -5'
23221 3' -58.1 NC_005259.1 + 51346 0.68 0.525888
Target:  5'- gUGAGCUCGgauaugccCGGUGgcacCGGCAcaccgcGCGUGu -3'
miRNA:   3'- aGCUCGAGCa-------GCCACa---GCCGU------CGCAC- -5'
23221 3' -58.1 NC_005259.1 + 9729 0.68 0.536102
Target:  5'- gUCGAGCUCGcCGaUGUucCGGUcauccaccacAGCGUGa -3'
miRNA:   3'- -AGCUCGAGCaGCcACA--GCCG----------UCGCAC- -5'
23221 3' -58.1 NC_005259.1 + 58202 0.67 0.577576
Target:  5'- gUGGGCUUGcCGGUGUCagGGuCAGUGg- -3'
miRNA:   3'- aGCUCGAGCaGCCACAG--CC-GUCGCac -5'
23221 3' -58.1 NC_005259.1 + 60284 0.67 0.587016
Target:  5'- cCGGGCggccaucgUCGUCGGUG-CGGCcacggacGGCGa- -3'
miRNA:   3'- aGCUCG--------AGCAGCCACaGCCG-------UCGCac -5'
23221 3' -58.1 NC_005259.1 + 41846 0.67 0.588066
Target:  5'- cUCGAcCUCGaCGGUGUCccacucgacgGGCAGCaccGUGg -3'
miRNA:   3'- -AGCUcGAGCaGCCACAG----------CCGUCG---CAC- -5'
23221 3' -58.1 NC_005259.1 + 57311 0.67 0.59859
Target:  5'- aUCGAGCacCGgCGGUGUCGGU-GUGg- -3'
miRNA:   3'- -AGCUCGa-GCaGCCACAGCCGuCGCac -5'
23221 3' -58.1 NC_005259.1 + 51792 0.66 0.609141
Target:  5'- uUCGGcGCUCGgCGG-GUCGGuCAGCu-- -3'
miRNA:   3'- -AGCU-CGAGCaGCCaCAGCC-GUCGcac -5'
23221 3' -58.1 NC_005259.1 + 58971 0.66 0.609141
Target:  5'- gUCGggcAGCUCGUCGGcGaCGGCgAGCuUGg -3'
miRNA:   3'- -AGC---UCGAGCAGCCaCaGCCG-UCGcAC- -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.