miRNA display CGI


Results 1 - 20 of 76 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
19736 3' -54.9 NC_004687.1 + 149939 1.14 0.001942
Target:  5'- aGCCGAGAACAUGCCAGGUCUCUCCGCu -3'
miRNA:   3'- -CGGCUCUUGUACGGUCCAGAGAGGCG- -5'
19736 3' -54.9 NC_004687.1 + 146068 0.79 0.304678
Target:  5'- cGCCGAGAccGCGcGCCAGGUCgaggaucUCUaCCGCu -3'
miRNA:   3'- -CGGCUCU--UGUaCGGUCCAG-------AGA-GGCG- -5'
19736 3' -54.9 NC_004687.1 + 89190 0.75 0.536248
Target:  5'- cGCCGAGuACAUGCCAGGcauguagaagCcCCGCg -3'
miRNA:   3'- -CGGCUCuUGUACGGUCCaga-------GaGGCG- -5'
19736 3' -54.9 NC_004687.1 + 40560 0.74 0.548197
Target:  5'- cGUCGAGGAU---CgAGGUCUCUCCGUg -3'
miRNA:   3'- -CGGCUCUUGuacGgUCCAGAGAGGCG- -5'
19736 3' -54.9 NC_004687.1 + 82465 0.73 0.61919
Target:  5'- cGCUGAGAucCAcGCCgAGGUCU-UCCGCg -3'
miRNA:   3'- -CGGCUCUu-GUaCGG-UCCAGAgAGGCG- -5'
19736 3' -54.9 NC_004687.1 + 110870 0.73 0.61919
Target:  5'- uGCCGAGAggucgACGU-CCGGuGUCgucgCUCCGCc -3'
miRNA:   3'- -CGGCUCU-----UGUAcGGUC-CAGa---GAGGCG- -5'
19736 3' -54.9 NC_004687.1 + 35230 0.73 0.61919
Target:  5'- cGCgGGGcugGAUGUGgCAGGUCUCcCCGCg -3'
miRNA:   3'- -CGgCUC---UUGUACgGUCCAGAGaGGCG- -5'
19736 3' -54.9 NC_004687.1 + 137015 0.73 0.61919
Target:  5'- aGCCGAGAGCAcuuucUGCuCGGGUCcaccCUgCUGCa -3'
miRNA:   3'- -CGGCUCUUGU-----ACG-GUCCAGa---GA-GGCG- -5'
19736 3' -54.9 NC_004687.1 + 144470 0.72 0.659103
Target:  5'- cGCCGuggcAGGGCAUcguggcccacucgGCCAGGUC-CUCgGCg -3'
miRNA:   3'- -CGGC----UCUUGUA-------------CGGUCCAGaGAGgCG- -5'
19736 3' -54.9 NC_004687.1 + 68653 0.72 0.659103
Target:  5'- aCCGGGAACggggugucggccaGUGCCAGGUCgcgCgCGCg -3'
miRNA:   3'- cGGCUCUUG-------------UACGGUCCAGagaG-GCG- -5'
19736 3' -54.9 NC_004687.1 + 35091 0.71 0.720671
Target:  5'- cGCCGccuGGAUcgGCCucGGUCgcucCUCCGCc -3'
miRNA:   3'- -CGGCu--CUUGuaCGGu-CCAGa---GAGGCG- -5'
19736 3' -54.9 NC_004687.1 + 124402 0.71 0.720671
Target:  5'- gGCCGAGGcacagaucgccaACAUGCgCcgcgAGGUCUCgcugCUGCa -3'
miRNA:   3'- -CGGCUCU------------UGUACG-G----UCCAGAGa---GGCG- -5'
19736 3' -54.9 NC_004687.1 + 69235 0.71 0.727594
Target:  5'- cGCCGAGuagGCGauUGCCAGGUCggcgguguagguccUCUUCGa -3'
miRNA:   3'- -CGGCUCu--UGU--ACGGUCCAG--------------AGAGGCg -5'
19736 3' -54.9 NC_004687.1 + 107885 0.71 0.730549
Target:  5'- cCCGAGGugGUGCUcgacgAGGUCga-CCGCg -3'
miRNA:   3'- cGGCUCUugUACGG-----UCCAGagaGGCG- -5'
19736 3' -54.9 NC_004687.1 + 108899 0.71 0.740341
Target:  5'- aGCCGGGGACGUacCCAGucCUCgUCCGCa -3'
miRNA:   3'- -CGGCUCUUGUAc-GGUCcaGAG-AGGCG- -5'
19736 3' -54.9 NC_004687.1 + 15901 0.71 0.75004
Target:  5'- uGCCGAGAggACcacgGUGCC-GGUCUUgCCGUu -3'
miRNA:   3'- -CGGCUCU--UG----UACGGuCCAGAGaGGCG- -5'
19736 3' -54.9 NC_004687.1 + 1851 0.71 0.75004
Target:  5'- uGCCuGGAACAggGCCAGGUC-C-CCGg -3'
miRNA:   3'- -CGGcUCUUGUa-CGGUCCAGaGaGGCg -5'
19736 3' -54.9 NC_004687.1 + 51409 0.71 0.758679
Target:  5'- cGCgGAGGACuuugacgGUGCCAaggaucauggcGGUCUCUuCCGUc -3'
miRNA:   3'- -CGgCUCUUG-------UACGGU-----------CCAGAGA-GGCG- -5'
19736 3' -54.9 NC_004687.1 + 24232 0.71 0.759634
Target:  5'- cCCGAGAcguccaGCAUGcCCGGGUCg-UCCGg -3'
miRNA:   3'- cGGCUCU------UGUAC-GGUCCAGagAGGCg -5'
19736 3' -54.9 NC_004687.1 + 58391 0.7 0.778475
Target:  5'- aCCGAGGaaagcgGCAaGCCGGGUCUgUUCGa -3'
miRNA:   3'- cGGCUCU------UGUaCGGUCCAGAgAGGCg -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.