miRNA display CGI


Results 1 - 20 of 33 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
19281 5' -56.7 NC_004685.1 + 11740 0.76 0.21241
Target:  5'- gGACUGCGGCaGGGUcugGUGCAUCcCGGc -3'
miRNA:   3'- aCUGACGUCGgUCCA---CACGUAGcGCC- -5'
19281 5' -56.7 NC_004685.1 + 54013 0.66 0.708494
Target:  5'- -uGCUGcCGGUggaugugccaugCAGGUGUGCGgggaugcCGCGGg -3'
miRNA:   3'- acUGAC-GUCG------------GUCCACACGUa------GCGCC- -5'
19281 5' -56.7 NC_004685.1 + 38842 0.66 0.676621
Target:  5'- cGGCUGCcgcGCCGGucgGUGCc-CGCGGu -3'
miRNA:   3'- aCUGACGu--CGGUCca-CACGuaGCGCC- -5'
19281 5' -56.7 NC_004685.1 + 41850 0.68 0.5692
Target:  5'- gUGcACgGCGGCCGGGUGUuCcgCGCcGGu -3'
miRNA:   3'- -AC-UGaCGUCGGUCCACAcGuaGCG-CC- -5'
19281 5' -56.7 NC_004685.1 + 6555 0.68 0.558593
Target:  5'- cGACaaGCAG-CAGGUGcGCAUCGUGc -3'
miRNA:   3'- aCUGa-CGUCgGUCCACaCGUAGCGCc -5'
19281 5' -56.7 NC_004685.1 + 25561 0.69 0.516795
Target:  5'- gGACUGCAGCgCGGuG-GUGCGcUUGuCGGa -3'
miRNA:   3'- aCUGACGUCG-GUC-CaCACGU-AGC-GCC- -5'
19281 5' -56.7 NC_004685.1 + 57555 0.69 0.505514
Target:  5'- -aGCUGCGcGCCAGGccgaucaucucgaUG-GCGUUGCGGu -3'
miRNA:   3'- acUGACGU-CGGUCC-------------ACaCGUAGCGCC- -5'
19281 5' -56.7 NC_004685.1 + 31240 0.69 0.486287
Target:  5'- cGGCUcgGGCCuGGUcgGCAUCGCGGc -3'
miRNA:   3'- aCUGAcgUCGGuCCAcaCGUAGCGCC- -5'
19281 5' -56.7 NC_004685.1 + 1912 0.71 0.391563
Target:  5'- -cGCUGCGGCCGcGGUugGCGUCaGCGGc -3'
miRNA:   3'- acUGACGUCGGU-CCAcaCGUAG-CGCC- -5'
19281 5' -56.7 NC_004685.1 + 46767 0.71 0.391563
Target:  5'- cUGGCcGUcaucGGCCGGGgauugGUgGCGUCGCGGu -3'
miRNA:   3'- -ACUGaCG----UCGGUCCa----CA-CGUAGCGCC- -5'
19281 5' -56.7 NC_004685.1 + 10484 0.72 0.348924
Target:  5'- cGGCaUGUuGCCGGGUGUGCuggaGUGGg -3'
miRNA:   3'- aCUG-ACGuCGGUCCACACGuag-CGCC- -5'
19281 5' -56.7 NC_004685.1 + 9020 0.73 0.317268
Target:  5'- -uGCUGC-GCgAGGUGUuCGUCGCGGu -3'
miRNA:   3'- acUGACGuCGgUCCACAcGUAGCGCC- -5'
19281 5' -56.7 NC_004685.1 + 30038 0.75 0.229508
Target:  5'- cGGCaaggGCGGCgGuGGUGUcgGCAUCGCGGg -3'
miRNA:   3'- aCUGa---CGUCGgU-CCACA--CGUAGCGCC- -5'
19281 5' -56.7 NC_004685.1 + 50666 0.67 0.644382
Target:  5'- cGACaggGCAGCCAGcGUGcGCcacaccuUCGCGu -3'
miRNA:   3'- aCUGa--CGUCGGUC-CACaCGu------AGCGCc -5'
19281 5' -56.7 NC_004685.1 + 8667 0.66 0.665901
Target:  5'- cUGAgUGCGGCaCGacGaUGUGCAUCGcCGGc -3'
miRNA:   3'- -ACUgACGUCG-GU--CcACACGUAGC-GCC- -5'
19281 5' -56.7 NC_004685.1 + 19909 0.66 0.67555
Target:  5'- gGGUUGCuGCCGaugacgcGG-GUGUAUCGCGGc -3'
miRNA:   3'- aCUGACGuCGGU-------CCaCACGUAGCGCC- -5'
19281 5' -56.7 NC_004685.1 + 5429 0.66 0.676621
Target:  5'- gGACaGCcuGGCCAgGGUGgaccUGUAUCuGCGGg -3'
miRNA:   3'- aCUGaCG--UCGGU-CCAC----ACGUAG-CGCC- -5'
19281 5' -56.7 NC_004685.1 + 24978 0.66 0.687299
Target:  5'- gUGAUgaacaGCGGCCGGGUGUcCGgccCGgGGg -3'
miRNA:   3'- -ACUGa----CGUCGGUCCACAcGUa--GCgCC- -5'
19281 5' -56.7 NC_004685.1 + 10536 0.66 0.708494
Target:  5'- -cGCcGCGGCCGGGUG-GCuucgacaaCGUGGg -3'
miRNA:   3'- acUGaCGUCGGUCCACaCGua------GCGCC- -5'
19281 5' -56.7 NC_004685.1 + 64043 1.1 0.00081
Target:  5'- cUGACUGCAGCCAGGUGUGCAUCGCGGu -3'
miRNA:   3'- -ACUGACGUCGGUCCACACGUAGCGCC- -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.