miRNA display CGI


Results 1 - 20 of 26 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
28086 5' -54.3 NC_005887.1 + 21682 0.66 0.701462
Target:  5'- --aCGUCGGGgGCAgcugcaaACGGuGCGAGCg -3'
miRNA:   3'- cagGUAGCUCgUGUag-----UGCC-CGCUUG- -5'
28086 5' -54.3 NC_005887.1 + 13771 0.66 0.701462
Target:  5'- -cUCGUCGAcCGCGUCcgcgcaGCGGGCGGcgACg -3'
miRNA:   3'- caGGUAGCUcGUGUAG------UGCCCGCU--UG- -5'
28086 5' -54.3 NC_005887.1 + 40012 0.66 0.690298
Target:  5'- --aCGUCGcgguGCGCAUCAUGGcGCGGc- -3'
miRNA:   3'- cagGUAGCu---CGUGUAGUGCC-CGCUug -5'
28086 5' -54.3 NC_005887.1 + 24732 0.66 0.679075
Target:  5'- -aCCGUCGuGCGCAgcguuuccaucUUGCGcGCGAGCg -3'
miRNA:   3'- caGGUAGCuCGUGU-----------AGUGCcCGCUUG- -5'
28086 5' -54.3 NC_005887.1 + 27228 0.66 0.656497
Target:  5'- --aCA-CGGGCGCAUCGCGGcGC-AACu -3'
miRNA:   3'- cagGUaGCUCGUGUAGUGCC-CGcUUG- -5'
28086 5' -54.3 NC_005887.1 + 27203 0.67 0.645167
Target:  5'- -gCCGUCGAGCGCcugCAUGGGguCGGu- -3'
miRNA:   3'- caGGUAGCUCGUGua-GUGCCC--GCUug -5'
28086 5' -54.3 NC_005887.1 + 41657 0.67 0.633824
Target:  5'- cGUCgG-CGAGCAgCAUCGacucGGCGAGCa -3'
miRNA:   3'- -CAGgUaGCUCGU-GUAGUgc--CCGCUUG- -5'
28086 5' -54.3 NC_005887.1 + 33952 0.67 0.611144
Target:  5'- -cUCggCGAGCACGUCGCGuGCGGc- -3'
miRNA:   3'- caGGuaGCUCGUGUAGUGCcCGCUug -5'
28086 5' -54.3 NC_005887.1 + 41501 0.67 0.599827
Target:  5'- cGUCCA-CGGGCACcuuggcuuucuUCGCGGccgcgaucgcGCGAGCa -3'
miRNA:   3'- -CAGGUaGCUCGUGu----------AGUGCC----------CGCUUG- -5'
28086 5' -54.3 NC_005887.1 + 14645 0.67 0.599827
Target:  5'- -gCCGUCGAGUGC--UACGcGGCGAGg -3'
miRNA:   3'- caGGUAGCUCGUGuaGUGC-CCGCUUg -5'
28086 5' -54.3 NC_005887.1 + 4462 0.68 0.577293
Target:  5'- -aCCGcuUCGAGCGCuUUACGGGCc--- -3'
miRNA:   3'- caGGU--AGCUCGUGuAGUGCCCGcuug -5'
28086 5' -54.3 NC_005887.1 + 2187 0.68 0.566092
Target:  5'- -gCCGUCGcGCAgcuCA-CACGcGGCGAGCg -3'
miRNA:   3'- caGGUAGCuCGU---GUaGUGC-CCGCUUG- -5'
28086 5' -54.3 NC_005887.1 + 14550 0.68 0.554949
Target:  5'- cGUCgAUCG-GCAUGUCGCGcGCGGAa -3'
miRNA:   3'- -CAGgUAGCuCGUGUAGUGCcCGCUUg -5'
28086 5' -54.3 NC_005887.1 + 26005 0.68 0.532867
Target:  5'- cUUCA-CGGGCgGCGUCGgGGGCGAGg -3'
miRNA:   3'- cAGGUaGCUCG-UGUAGUgCCCGCUUg -5'
28086 5' -54.3 NC_005887.1 + 41907 0.68 0.529581
Target:  5'- -aCCAcacgcgcagaggguUCGAGCGCAgcaacaGCGGGCGGcGCg -3'
miRNA:   3'- caGGU--------------AGCUCGUGUag----UGCCCGCU-UG- -5'
28086 5' -54.3 NC_005887.1 + 21457 0.69 0.468769
Target:  5'- --gCGUCGAGCACGgucaGCGGGuCGggUu -3'
miRNA:   3'- cagGUAGCUCGUGUag--UGCCC-GCuuG- -5'
28086 5' -54.3 NC_005887.1 + 15524 0.7 0.458465
Target:  5'- uUCCGgacgucgCGAGguuCGUCACGGGCGAc- -3'
miRNA:   3'- cAGGUa------GCUCgu-GUAGUGCCCGCUug -5'
28086 5' -54.3 NC_005887.1 + 27565 0.7 0.458465
Target:  5'- gGUCCAgCGGGUugAUCugGucGGCGAGg -3'
miRNA:   3'- -CAGGUaGCUCGugUAGugC--CCGCUUg -5'
28086 5' -54.3 NC_005887.1 + 33467 0.7 0.452341
Target:  5'- gGUCCG-CGAGCGCGuacggcgucgcgaucUCgACGGGCGcGCc -3'
miRNA:   3'- -CAGGUaGCUCGUGU---------------AG-UGCCCGCuUG- -5'
28086 5' -54.3 NC_005887.1 + 14840 0.7 0.448283
Target:  5'- -----gCGGGCACGuUCGCGGGCGuGCa -3'
miRNA:   3'- cagguaGCUCGUGU-AGUGCCCGCuUG- -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.