miRNA display CGI


Results 1 - 20 of 21 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
12830 5' -57 NC_003387.1 + 29024 0.66 0.590536
Target:  5'- cGCCUGGGCGuUGCucgcGUUGuauccggccGCCUUGa -3'
miRNA:   3'- aCGGGUCCGC-ACGu---CAACu--------CGGAACc -5'
12830 5' -57 NC_003387.1 + 20266 0.66 0.590536
Target:  5'- gGCCggguuuuuCGGGC-UGCAGUUccGAGCCgagcUGGg -3'
miRNA:   3'- aCGG--------GUCCGcACGUCAA--CUCGGa---ACC- -5'
12830 5' -57 NC_003387.1 + 4029 0.66 0.590536
Target:  5'- cGCCaagcgcgaGGGCGUGCGGUgggugcGAuacGCCUcGGu -3'
miRNA:   3'- aCGGg-------UCCGCACGUCAa-----CU---CGGAaCC- -5'
12830 5' -57 NC_003387.1 + 37129 0.66 0.579604
Target:  5'- cGgCCGGGcCGUGaUGGUUGGGCaCUcgcUGGg -3'
miRNA:   3'- aCgGGUCC-GCAC-GUCAACUCG-GA---ACC- -5'
12830 5' -57 NC_003387.1 + 24127 0.66 0.579604
Target:  5'- gUGCCCGuacGCG-GCGGUguUGAGCUUgagGGc -3'
miRNA:   3'- -ACGGGUc--CGCaCGUCA--ACUCGGAa--CC- -5'
12830 5' -57 NC_003387.1 + 8392 0.66 0.579604
Target:  5'- -aUCCAGuuGCGUGCGGUgucgGGGCCUcgccGGu -3'
miRNA:   3'- acGGGUC--CGCACGUCAa---CUCGGAa---CC- -5'
12830 5' -57 NC_003387.1 + 251 0.66 0.579604
Target:  5'- aUGCUCA-GCGUGCAGU---GCCcUGGc -3'
miRNA:   3'- -ACGGGUcCGCACGUCAacuCGGaACC- -5'
12830 5' -57 NC_003387.1 + 39622 0.67 0.5471
Target:  5'- cGCCgAGGUG-GCGGcaUGAGCCUc-- -3'
miRNA:   3'- aCGGgUCCGCaCGUCa-ACUCGGAacc -5'
12830 5' -57 NC_003387.1 + 33060 0.67 0.53639
Target:  5'- cGCCCAGGUGcacaaUGCGGUUGAuaauGUCg--- -3'
miRNA:   3'- aCGGGUCCGC-----ACGUCAACU----CGGaacc -5'
12830 5' -57 NC_003387.1 + 48153 0.67 0.494351
Target:  5'- gGCCUcGGCGaGCAGcUUGucGGCCUUGu -3'
miRNA:   3'- aCGGGuCCGCaCGUC-AAC--UCGGAACc -5'
12830 5' -57 NC_003387.1 + 35859 0.68 0.484073
Target:  5'- cGCCUGGGCGUGCGGc---GCCa--- -3'
miRNA:   3'- aCGGGUCCGCACGUCaacuCGGaacc -5'
12830 5' -57 NC_003387.1 + 30964 0.68 0.441116
Target:  5'- cUGCCCAGGaauccccacagcacCGUgucGCAGUUgGGGCCgaGGu -3'
miRNA:   3'- -ACGGGUCC--------------GCA---CGUCAA-CUCGGaaCC- -5'
12830 5' -57 NC_003387.1 + 42967 0.69 0.424738
Target:  5'- cGCCCcGGCaUGCGcgUGAGCC-UGGc -3'
miRNA:   3'- aCGGGuCCGcACGUcaACUCGGaACC- -5'
12830 5' -57 NC_003387.1 + 21369 0.69 0.424738
Target:  5'- cUGCCCuGGCcgGUGCuGUUcGAcccgcgcuaauGCCUUGGa -3'
miRNA:   3'- -ACGGGuCCG--CACGuCAA-CU-----------CGGAACC- -5'
12830 5' -57 NC_003387.1 + 13713 0.69 0.396742
Target:  5'- gGCCCAGGCGgcGCAGggcgaucAGCCUgcgcaGGu -3'
miRNA:   3'- aCGGGUCCGCa-CGUCaac----UCGGAa----CC- -5'
12830 5' -57 NC_003387.1 + 3424 0.7 0.37875
Target:  5'- gUGCCCucGGCGUGCucGgcGAGCaCcUGGg -3'
miRNA:   3'- -ACGGGu-CCGCACGu-CaaCUCG-GaACC- -5'
12830 5' -57 NC_003387.1 + 20569 0.7 0.364756
Target:  5'- cGCCCcgguGGGCGUGCAGggcaccacauuucGGGCCUa-- -3'
miRNA:   3'- aCGGG----UCCGCACGUCaa-----------CUCGGAacc -5'
12830 5' -57 NC_003387.1 + 45957 0.7 0.361314
Target:  5'- gGCCCgcgcaagggcgAGGCGUGCGcugUGGGCCUg-- -3'
miRNA:   3'- aCGGG-----------UCCGCACGUca-ACUCGGAacc -5'
12830 5' -57 NC_003387.1 + 14947 0.71 0.328149
Target:  5'- cGCCCAGGCGcGC--UUGAgcacGCCUUGa -3'
miRNA:   3'- aCGGGUCCGCaCGucAACU----CGGAACc -5'
12830 5' -57 NC_003387.1 + 22174 0.74 0.196258
Target:  5'- gGCCCAGGCGggggcgGCGGUaucgggUGGGCCa--- -3'
miRNA:   3'- aCGGGUCCGCa-----CGUCA------ACUCGGaacc -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.