miRNA display CGI


Results 1 - 20 of 29 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
23417 3' -54.7 NC_005259.1 + 36236 0.66 0.807406
Target:  5'- uUGgc-CAGCGcgagcgccUgCGUCGGCAgCGCCa -3'
miRNA:   3'- cACaaaGUCGC--------AgGUAGCCGUgGCGG- -5'
23417 3' -54.7 NC_005259.1 + 23301 0.66 0.797939
Target:  5'- -gGUaUCGGgGUCCggcgcgGUCGGUGUCGCCg -3'
miRNA:   3'- caCAaAGUCgCAGG------UAGCCGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 46913 0.66 0.788303
Target:  5'- ------gAGCaGUCCG-CGuGCGCCGCCg -3'
miRNA:   3'- cacaaagUCG-CAGGUaGC-CGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 16681 0.66 0.788303
Target:  5'- aUGUggUCGGCGaUCC-UgGGCaccgaggugACCGCCg -3'
miRNA:   3'- cACAa-AGUCGC-AGGuAgCCG---------UGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 13447 0.66 0.778508
Target:  5'- ------aGGCGUgaCCGUCGGCGCgGCg -3'
miRNA:   3'- cacaaagUCGCA--GGUAGCCGUGgCGg -5'
23417 3' -54.7 NC_005259.1 + 42445 0.66 0.778508
Target:  5'- cGUG-UUCGGCGUCCAacagucgccgacUaCGGCGagGCCc -3'
miRNA:   3'- -CACaAAGUCGCAGGU------------A-GCCGUggCGG- -5'
23417 3' -54.7 NC_005259.1 + 46572 0.66 0.778508
Target:  5'- -gGUcgCGGCGUCgA-CcGCGCCGCCc -3'
miRNA:   3'- caCAaaGUCGCAGgUaGcCGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 12156 0.67 0.768566
Target:  5'- ----aUCAcCG-CCGaCGGCACCGCCc -3'
miRNA:   3'- cacaaAGUcGCaGGUaGCCGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 43947 0.67 0.758485
Target:  5'- -----aCAGCGUCgGcgaugggCGGgGCCGCCg -3'
miRNA:   3'- cacaaaGUCGCAGgUa------GCCgUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 26663 0.67 0.758485
Target:  5'- ---gUUCGGCGcacCCggCGGCAgcCCGCCc -3'
miRNA:   3'- cacaAAGUCGCa--GGuaGCCGU--GGCGG- -5'
23417 3' -54.7 NC_005259.1 + 65104 0.67 0.758485
Target:  5'- cGUGgcacggUCAGUGcgucaCCGUCGGCGCaccggcgGCCa -3'
miRNA:   3'- -CACaa----AGUCGCa----GGUAGCCGUGg------CGG- -5'
23417 3' -54.7 NC_005259.1 + 42772 0.67 0.737958
Target:  5'- ----cUCGGCGgUC-UCGGgGCCGCCa -3'
miRNA:   3'- cacaaAGUCGCaGGuAGCCgUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 46315 0.67 0.73692
Target:  5'- uUGUUcgCGGCcccgaggGUCgCGUCGcGCACCGCUu -3'
miRNA:   3'- cACAAa-GUCG-------CAG-GUAGC-CGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 46670 0.67 0.727532
Target:  5'- -gGUUcUCGGCGagC-UCGGCcugaGCCGCCg -3'
miRNA:   3'- caCAA-AGUCGCagGuAGCCG----UGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 22636 0.68 0.717014
Target:  5'- ---cUUCGccGCGUCgGUCGaCGCCGCCc -3'
miRNA:   3'- cacaAAGU--CGCAGgUAGCcGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 12990 0.68 0.706413
Target:  5'- cGUGgugcUC-GCGUUCGcacUCGGCuacGCCGCCg -3'
miRNA:   3'- -CACaa--AGuCGCAGGU---AGCCG---UGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 47186 0.68 0.68501
Target:  5'- ----gUCGGCGgugCCGUCGGCGaagaacUUGCCg -3'
miRNA:   3'- cacaaAGUCGCa--GGUAGCCGU------GGCGG- -5'
23417 3' -54.7 NC_005259.1 + 58869 0.68 0.68501
Target:  5'- -cGUcgUCGuCGUCgCcUCGGCAUCGCCg -3'
miRNA:   3'- caCAa-AGUcGCAG-GuAGCCGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 30105 0.69 0.619946
Target:  5'- -cGgagCuGUGUgCAUCGGCAUUGCCg -3'
miRNA:   3'- caCaaaGuCGCAgGUAGCCGUGGCGG- -5'
23417 3' -54.7 NC_005259.1 + 56254 0.69 0.619946
Target:  5'- -gGgaUCGGCGgCC-UUGaGCGCCGCCg -3'
miRNA:   3'- caCaaAGUCGCaGGuAGC-CGUGGCGG- -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.