miRNA display CGI


Results 1 - 20 of 22 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
30497 5' -56.2 NC_006548.1 + 4973 0.66 0.523798
Target:  5'- aGCCAUGaugGCUGCGGUUgCGCcacuggaGCGGc -3'
miRNA:   3'- -CGGUACg--UGACGUCGAgGCGua-----CGUC- -5'
30497 5' -56.2 NC_006548.1 + 33390 0.66 0.520507
Target:  5'- gGCCAcGCagggcguacagcagGCUgcGCAGCgCCGCAUGCu- -3'
miRNA:   3'- -CGGUaCG--------------UGA--CGUCGaGGCGUACGuc -5'
30497 5' -56.2 NC_006548.1 + 32507 0.66 0.49128
Target:  5'- gGCCAcaguccagaUGCGCuccUGCAGCgCCGCGaacgGCAa -3'
miRNA:   3'- -CGGU---------ACGUG---ACGUCGaGGCGUa---CGUc -5'
30497 5' -56.2 NC_006548.1 + 11752 0.66 0.480648
Target:  5'- gGUCAUGCGCggcgcGCGGCggcgCCGgGguUGCGGc -3'
miRNA:   3'- -CGGUACGUGa----CGUCGa---GGCgU--ACGUC- -5'
30497 5' -56.2 NC_006548.1 + 12946 0.66 0.480648
Target:  5'- cGCgGUGCugUGCGGCgcagCCGU--GguGa -3'
miRNA:   3'- -CGgUACGugACGUCGa---GGCGuaCguC- -5'
30497 5' -56.2 NC_006548.1 + 7287 0.67 0.459729
Target:  5'- cGCUAUGCAaaGCAGC--CGCG-GCAGa -3'
miRNA:   3'- -CGGUACGUgaCGUCGagGCGUaCGUC- -5'
30497 5' -56.2 NC_006548.1 + 19417 0.67 0.458696
Target:  5'- cGCCAgGCACgcaGCAGCaCCGUGUacuuccgGCAGa -3'
miRNA:   3'- -CGGUaCGUGa--CGUCGaGGCGUA-------CGUC- -5'
30497 5' -56.2 NC_006548.1 + 36973 0.67 0.449452
Target:  5'- aCCAguugaucgGC-CUGCAGCagCCGguUGCGGu -3'
miRNA:   3'- cGGUa-------CGuGACGUCGa-GGCguACGUC- -5'
30497 5' -56.2 NC_006548.1 + 16387 0.67 0.439303
Target:  5'- cGCCAcgGCGCUGCAGgaUCgaaucguuggGCAccUGCAGg -3'
miRNA:   3'- -CGGUa-CGUGACGUCgaGG----------CGU--ACGUC- -5'
30497 5' -56.2 NC_006548.1 + 23548 0.67 0.429286
Target:  5'- cGCCAgGCGgUGgGGUUCCGCAgGUAc -3'
miRNA:   3'- -CGGUaCGUgACgUCGAGGCGUaCGUc -5'
30497 5' -56.2 NC_006548.1 + 16918 0.68 0.409664
Target:  5'- gGCCAaGCuACUgGCGGCcCUGCAUGCc- -3'
miRNA:   3'- -CGGUaCG-UGA-CGUCGaGGCGUACGuc -5'
30497 5' -56.2 NC_006548.1 + 8292 0.68 0.375788
Target:  5'- aCCcgGCGguugauuucguugaUGCGGUUCUGCAUGCGGc -3'
miRNA:   3'- cGGuaCGUg-------------ACGUCGAGGCGUACGUC- -5'
30497 5' -56.2 NC_006548.1 + 16558 0.69 0.328638
Target:  5'- cCCAcGCGCUGCAGCUgCUGCuc-CAGg -3'
miRNA:   3'- cGGUaCGUGACGUCGA-GGCGuacGUC- -5'
30497 5' -56.2 NC_006548.1 + 7248 0.7 0.304394
Target:  5'- cGCCGUGCGCUGCcccugaccggcGCUCUGUAgcUGCc- -3'
miRNA:   3'- -CGGUACGUGACGu----------CGAGGCGU--ACGuc -5'
30497 5' -56.2 NC_006548.1 + 6065 0.7 0.296623
Target:  5'- aCCAguUGCACUGCAuCUUCGCGccagggguUGCGGg -3'
miRNA:   3'- cGGU--ACGUGACGUcGAGGCGU--------ACGUC- -5'
30497 5' -56.2 NC_006548.1 + 20604 0.7 0.281547
Target:  5'- aCgGUGCcCUGCGGCucuUCCGCAgcgGCGGc -3'
miRNA:   3'- cGgUACGuGACGUCG---AGGCGUa--CGUC- -5'
30497 5' -56.2 NC_006548.1 + 31531 0.71 0.260082
Target:  5'- gGCCA-GUACguaUGCGGCUCCGUAaucuaucagGCAGg -3'
miRNA:   3'- -CGGUaCGUG---ACGUCGAGGCGUa--------CGUC- -5'
30497 5' -56.2 NC_006548.1 + 16082 0.72 0.203646
Target:  5'- gGCCGUcaGCAgUGC-GCUCCGCAgugaaGCGGa -3'
miRNA:   3'- -CGGUA--CGUgACGuCGAGGCGUa----CGUC- -5'
30497 5' -56.2 NC_006548.1 + 8146 0.73 0.176614
Target:  5'- cGCCAUgaccucgGCACUGU-GCUCCGuCAUGguGg -3'
miRNA:   3'- -CGGUA-------CGUGACGuCGAGGC-GUACguC- -5'
30497 5' -56.2 NC_006548.1 + 6982 0.74 0.162705
Target:  5'- aGCCGcGCGCUGCacAGCUaCCGCcUGCAu -3'
miRNA:   3'- -CGGUaCGUGACG--UCGA-GGCGuACGUc -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.