miRNA display CGI


Results 1 - 20 of 26 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
29188 3' -55.8 NC_006150.1 + 40059 0.66 0.947409
Target:  5'- gACCUucGAGU--GGUGCGGCUAUGGCUa -3'
miRNA:   3'- -UGGAc-CUUAacCCACGUCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 135521 0.66 0.947409
Target:  5'- cACCuUGGAGgucgccauGGUGCcGCCGCGGUg -3'
miRNA:   3'- -UGG-ACCUUaac-----CCACGuCGGUGUCGg -5'
29188 3' -55.8 NC_006150.1 + 104930 0.66 0.946121
Target:  5'- uGCCgUGGG--UGuGUGCagggcuuuggcugaGGCCACGGCCu -3'
miRNA:   3'- -UGG-ACCUuaACcCACG--------------UCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 106234 0.66 0.944813
Target:  5'- gGCCgauagGGAagcGUUGcGG-GCucagcugacggcaacAGCCGCGGCCg -3'
miRNA:   3'- -UGGa----CCU---UAAC-CCaCG---------------UCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 448 0.66 0.943037
Target:  5'- -gCUGGAGggGGGcccgGgGGUCGCGGCg -3'
miRNA:   3'- ugGACCUUaaCCCa---CgUCGGUGUCGg -5'
29188 3' -55.8 NC_006150.1 + 123406 0.66 0.938436
Target:  5'- gACCUGG---UGGuUGCAGUuauCAUGGCCa -3'
miRNA:   3'- -UGGACCuuaACCcACGUCG---GUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 114094 0.66 0.938436
Target:  5'- gAUCUGGAAc-GGGUGCuggaGGUCGCugGGCUg -3'
miRNA:   3'- -UGGACCUUaaCCCACG----UCGGUG--UCGG- -5'
29188 3' -55.8 NC_006150.1 + 116699 0.66 0.935564
Target:  5'- -aCUGGAAcUGGcUGCGGUCGCccuucucgcguuaccGGCCg -3'
miRNA:   3'- ugGACCUUaACCcACGUCGGUG---------------UCGG- -5'
29188 3' -55.8 NC_006150.1 + 216165 0.67 0.923236
Target:  5'- aACC-GGugau--GUGCAGCUGCAGCCg -3'
miRNA:   3'- -UGGaCCuuaaccCACGUCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 182035 0.67 0.911938
Target:  5'- cACCUGGAccUGGGcggGcCGGUUACccGGCCg -3'
miRNA:   3'- -UGGACCUuaACCCa--C-GUCGGUG--UCGG- -5'
29188 3' -55.8 NC_006150.1 + 88831 0.67 0.899715
Target:  5'- gACCUGGAugcGGGUcGCGGCUcCAGg- -3'
miRNA:   3'- -UGGACCUuaaCCCA-CGUCGGuGUCgg -5'
29188 3' -55.8 NC_006150.1 + 88141 0.67 0.899081
Target:  5'- gGCggGGGggUGGGcgcagugUGCaAGCCACGGCUa -3'
miRNA:   3'- -UGgaCCUuaACCC-------ACG-UCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 30702 0.68 0.893263
Target:  5'- uAUgUGGcaaaaUGGGUGgAGCUGCAGCUg -3'
miRNA:   3'- -UGgACCuua--ACCCACgUCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 119385 0.68 0.885909
Target:  5'- gUCUGGAA-UGGGUGUacuuccuucagacGGCCcUGGCCu -3'
miRNA:   3'- uGGACCUUaACCCACG-------------UCGGuGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 78316 0.68 0.879694
Target:  5'- uGCagGGAAggcuUUGGGUGUGGCCAUcggAGCUg -3'
miRNA:   3'- -UGgaCCUU----AACCCACGUCGGUG---UCGG- -5'
29188 3' -55.8 NC_006150.1 + 85023 0.68 0.857739
Target:  5'- cACUaaUGuGAGUUGagaGGUGCAGCUugAGCUc -3'
miRNA:   3'- -UGG--AC-CUUAAC---CCACGUCGGugUCGG- -5'
29188 3' -55.8 NC_006150.1 + 104075 0.68 0.857739
Target:  5'- -gCUGGGuGUUGGGaaUGGCCGCGGCUg -3'
miRNA:   3'- ugGACCU-UAACCCacGUCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 134572 0.69 0.842098
Target:  5'- ---cGGAAauagcGGGUGCAGCgACAGgCCg -3'
miRNA:   3'- uggaCCUUaa---CCCACGUCGgUGUC-GG- -5'
29188 3' -55.8 NC_006150.1 + 88564 0.69 0.833995
Target:  5'- -gCUGGggUgcagGGGcGCgguucccuGGUCGCAGCCa -3'
miRNA:   3'- ugGACCuuAa---CCCaCG--------UCGGUGUCGG- -5'
29188 3' -55.8 NC_006150.1 + 99555 0.69 0.817258
Target:  5'- uCCaGGGcgUGGucucUGCGGCCGCuGCCa -3'
miRNA:   3'- uGGaCCUuaACCc---ACGUCGGUGuCGG- -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.