miRNA display CGI


Results 1 - 20 of 68 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
26740 3' -55.8 NC_005808.1 + 39846 0.73 0.252212
Target:  5'- gGCaGUGGUCGGCacgcccgaGCAGCGCCGGg -3'
miRNA:   3'- aCG-CGUCAGUCGcuaa----CGUCGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 39051 0.69 0.403144
Target:  5'- gGCGCGGUUGGCGGgacugcgcggugUGCGGCugUa- -3'
miRNA:   3'- aCGCGUCAGUCGCUa-----------ACGUCGugGcc -5'
26740 3' -55.8 NC_005808.1 + 38730 0.67 0.527209
Target:  5'- aGCGCGGccuaCAGCGA---CGGCGCCuGGu -3'
miRNA:   3'- aCGCGUCa---GUCGCUaacGUCGUGG-CC- -5'
26740 3' -55.8 NC_005808.1 + 37467 0.66 0.616861
Target:  5'- cUGCGCGGcacguugcaguucaaCGGCGccaGCcGCACCGGa -3'
miRNA:   3'- -ACGCGUCa--------------GUCGCuaaCGuCGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 34439 0.68 0.453877
Target:  5'- gGCGCAcgcgCAGgGAc-GCAGCGCCGa -3'
miRNA:   3'- aCGCGUca--GUCgCUaaCGUCGUGGCc -5'
26740 3' -55.8 NC_005808.1 + 33153 0.71 0.310009
Target:  5'- gUGCGCgaAGUgGGCGAUggUGgAGUugCGGa -3'
miRNA:   3'- -ACGCG--UCAgUCGCUA--ACgUCGugGCC- -5'
26740 3' -55.8 NC_005808.1 + 31450 0.67 0.548999
Target:  5'- gUGCGCAGgCGGCcca-GCAGCagGCCGa -3'
miRNA:   3'- -ACGCGUCaGUCGcuaaCGUCG--UGGCc -5'
26740 3' -55.8 NC_005808.1 + 31165 0.68 0.484673
Target:  5'- cGCGCcuuaUCGGCGAccUGCA-CGCCGGc -3'
miRNA:   3'- aCGCGuc--AGUCGCUa-ACGUcGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 30436 0.68 0.499384
Target:  5'- aGCGCGGgCAGgGccucgcccugaaucaGUUGCcagggGGCGCCGGu -3'
miRNA:   3'- aCGCGUCaGUCgC---------------UAACG-----UCGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 30179 0.7 0.34249
Target:  5'- gGCGcCAGUCGGUGAagGCcaugaaguAGCcGCCGGg -3'
miRNA:   3'- aCGC-GUCAGUCGCUaaCG--------UCG-UGGCC- -5'
26740 3' -55.8 NC_005808.1 + 29600 0.74 0.220791
Target:  5'- cGCGCGGUUuGCcaGUUGUccAGCGCCGGg -3'
miRNA:   3'- aCGCGUCAGuCGc-UAACG--UCGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 28576 0.67 0.527209
Target:  5'- cGCGCAcGUCGGCcaccgGCAGCGuggugUCGGu -3'
miRNA:   3'- aCGCGU-CAGUCGcuaa-CGUCGU-----GGCC- -5'
26740 3' -55.8 NC_005808.1 + 27890 0.66 0.593332
Target:  5'- gGCGCAGggcauggaGGCGcaacUGCAG-GCCGGg -3'
miRNA:   3'- aCGCGUCag------UCGCua--ACGUCgUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 27744 0.7 0.368419
Target:  5'- gGCGCc--CAGCG--UGCGGCGCUGGc -3'
miRNA:   3'- aCGCGucaGUCGCuaACGUCGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 27674 0.68 0.474294
Target:  5'- cGCGCAGUCGGCacUUG-AG-GCCGGc -3'
miRNA:   3'- aCGCGUCAGUCGcuAACgUCgUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 25797 0.66 0.604523
Target:  5'- cGCGCGGcgcgcUCGGUaucGUUGaucuGCACCGGg -3'
miRNA:   3'- aCGCGUC-----AGUCGc--UAACgu--CGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 24555 0.73 0.226796
Target:  5'- cGCGCAGcgCGGCGAUgGCGagGCCGGc -3'
miRNA:   3'- aCGCGUCa-GUCGCUAaCGUcgUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 24304 0.67 0.516434
Target:  5'- gGCGgugaGGUCGGCGA--GCAGC-CgCGGg -3'
miRNA:   3'- aCGCg---UCAGUCGCUaaCGUCGuG-GCC- -5'
26740 3' -55.8 NC_005808.1 + 23745 0.72 0.279927
Target:  5'- cGCGCAG-CAGCGccAUgccgGCGcCACCGGg -3'
miRNA:   3'- aCGCGUCaGUCGC--UAa---CGUcGUGGCC- -5'
26740 3' -55.8 NC_005808.1 + 21834 0.67 0.527209
Target:  5'- cGCGCgaugAGUCgAGCGcggcGCAGCGCCu- -3'
miRNA:   3'- aCGCG----UCAG-UCGCuaa-CGUCGUGGcc -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.