miRNA display CGI


Results 1 - 20 of 46 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
1923 5' -66 NC_001347.2 + 140670 0.66 0.585221
Target:  5'- -uCCGGGgGaaugaUGGGgCGCGGCGGUcgcauguuGGGc -3'
miRNA:   3'- acGGCCCgU-----ACCCgGCGCCGCCA--------CCU- -5'
1923 5' -66 NC_001347.2 + 209736 0.66 0.585221
Target:  5'- cUGCCGGaGCAccgUGGGUgcCGGCGGUa-- -3'
miRNA:   3'- -ACGGCC-CGU---ACCCGgcGCCGCCAccu -5'
1923 5' -66 NC_001347.2 + 44031 0.66 0.575942
Target:  5'- cGCgGuGGCGacGGCaGCGGUGGUGGc -3'
miRNA:   3'- aCGgC-CCGUacCCGgCGCCGCCACCu -5'
1923 5' -66 NC_001347.2 + 78348 0.66 0.566697
Target:  5'- gGuCCGGGCggacccggcgugGUGGGaCCcgGCGGCgccguGGUGGGa -3'
miRNA:   3'- aC-GGCCCG------------UACCC-GG--CGCCG-----CCACCU- -5'
1923 5' -66 NC_001347.2 + 36 0.66 0.566697
Target:  5'- gUGUuuUGGGUGUgucGGGgCGCGGCcgGGUGGGu -3'
miRNA:   3'- -ACG--GCCCGUA---CCCgGCGCCG--CCACCU- -5'
1923 5' -66 NC_001347.2 + 199323 0.66 0.551986
Target:  5'- gGCC-GGCAUGGGUaugcauucguugagGCGGCGGaGGu -3'
miRNA:   3'- aCGGcCCGUACCCGg-------------CGCCGCCaCCu -5'
1923 5' -66 NC_001347.2 + 135863 0.66 0.548326
Target:  5'- gGCCGGaGCccgGGGaggaGCGG-GGUGGGg -3'
miRNA:   3'- aCGGCC-CGua-CCCgg--CGCCgCCACCU- -5'
1923 5' -66 NC_001347.2 + 56238 0.66 0.53921
Target:  5'- gUGCCGcaCAa-GGCCGUGGCGGUaGGGu -3'
miRNA:   3'- -ACGGCccGUacCCGGCGCCGCCA-CCU- -5'
1923 5' -66 NC_001347.2 + 8175 0.66 0.530146
Target:  5'- aUGCCGGug--GGGCCGggaCGG-GGUGGGa -3'
miRNA:   3'- -ACGGCCcguaCCCGGC---GCCgCCACCU- -5'
1923 5' -66 NC_001347.2 + 1731 0.67 0.521139
Target:  5'- cGCCGGcgGUGGGCCGgcaCGaCGGUGGc -3'
miRNA:   3'- aCGGCCcgUACCCGGC---GCcGCCACCu -5'
1923 5' -66 NC_001347.2 + 135965 0.67 0.517552
Target:  5'- gGCCGGGCcgucggauggggGGGUCgaGCGGgGGgaggGGAg -3'
miRNA:   3'- aCGGCCCGua----------CCCGG--CGCCgCCa---CCU- -5'
1923 5' -66 NC_001347.2 + 185360 0.67 0.512192
Target:  5'- cGCCGccGUggGGGCCGCGGagGGaGGAg -3'
miRNA:   3'- aCGGCc-CGuaCCCGGCGCCg-CCaCCU- -5'
1923 5' -66 NC_001347.2 + 173652 0.67 0.512192
Target:  5'- cGuCUGGGag-GaGGUgGCGGCGGUGGc -3'
miRNA:   3'- aC-GGCCCguaC-CCGgCGCCGCCACCu -5'
1923 5' -66 NC_001347.2 + 82693 0.67 0.503308
Target:  5'- aGCUggucccgaacaGGGUGUacGGGUgGUGGCGGUGGu -3'
miRNA:   3'- aCGG-----------CCCGUA--CCCGgCGCCGCCACCu -5'
1923 5' -66 NC_001347.2 + 41158 0.67 0.485748
Target:  5'- cGCgCGGaaAUccGCCGCGGCGGUGGc -3'
miRNA:   3'- aCG-GCCcgUAccCGGCGCCGCCACCu -5'
1923 5' -66 NC_001347.2 + 75404 0.67 0.485748
Target:  5'- aGCgGGaGCGgcGGCCGUGGCGGcGGc -3'
miRNA:   3'- aCGgCC-CGUacCCGGCGCCGCCaCCu -5'
1923 5' -66 NC_001347.2 + 106218 0.67 0.485748
Target:  5'- cGCCGGcCAcGagccagacgaGGCgGCGGCGGUGGc -3'
miRNA:   3'- aCGGCCcGUaC----------CCGgCGCCGCCACCu -5'
1923 5' -66 NC_001347.2 + 184961 0.67 0.485748
Target:  5'- gGCgUGGGCGgcucgcggagacUGGGCUGCaGGCGGcagcGGAu -3'
miRNA:   3'- aCG-GCCCGU------------ACCCGGCG-CCGCCa---CCU- -5'
1923 5' -66 NC_001347.2 + 1630 0.67 0.477077
Target:  5'- gGCUGGGCGUGGGCacccCGCGcGCGa---- -3'
miRNA:   3'- aCGGCCCGUACCCG----GCGC-CGCcaccu -5'
1923 5' -66 NC_001347.2 + 174978 0.68 0.451541
Target:  5'- gUGCUGcaGGUAUuuguggugcGGGCCGUGcCGGUGGAg -3'
miRNA:   3'- -ACGGC--CCGUA---------CCCGGCGCcGCCACCU- -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.