miRNA display CGI


Results 1 - 18 of 18 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
12887 5' -58.6 NC_003387.1 + 12843 0.66 0.508672
Target:  5'- aGGGcGGCGuGGAcaccgcACCgGCGGGCCUGu -3'
miRNA:   3'- aCCC-UCGU-CCUaa----UGGaCGUCCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 48260 0.66 0.488132
Target:  5'- -cGGuGCGGGc--ACCuUGCGGGCCUGc -3'
miRNA:   3'- acCCuCGUCCuaaUGG-ACGUCCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 7921 0.66 0.488132
Target:  5'- cGGGGGCgucGGcGAUUccGCCUGCGcGCCgGg -3'
miRNA:   3'- aCCCUCG---UC-CUAA--UGGACGUcCGGgC- -5'
12887 5' -58.6 NC_003387.1 + 44336 0.67 0.438605
Target:  5'- cGcGGcGCGGuGUUugCUGCAGGCCa- -3'
miRNA:   3'- aC-CCuCGUCcUAAugGACGUCCGGgc -5'
12887 5' -58.6 NC_003387.1 + 23413 0.67 0.419612
Target:  5'- cGGGugagcAGCGGGucauCCUGCAGGaaCCGg -3'
miRNA:   3'- aCCC-----UCGUCCuaauGGACGUCCg-GGC- -5'
12887 5' -58.6 NC_003387.1 + 21185 0.67 0.419612
Target:  5'- cGaGGAGCAGGugcacGCCgUGCuGGCCgCGu -3'
miRNA:   3'- aC-CCUCGUCCuaa--UGG-ACGuCCGG-GC- -5'
12887 5' -58.6 NC_003387.1 + 32285 0.67 0.407537
Target:  5'- gUGGGGGCgcgAGGAgcACCgGCGGcugcacaacccgauGCCCGa -3'
miRNA:   3'- -ACCCUCG---UCCUaaUGGaCGUC--------------CGGGC- -5'
12887 5' -58.6 NC_003387.1 + 4572 0.68 0.39208
Target:  5'- cGGucGAGCGGG---GCCUccGCGGGCUCGg -3'
miRNA:   3'- aCC--CUCGUCCuaaUGGA--CGUCCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 42408 0.68 0.383167
Target:  5'- cUGaGGAGCAGuu---CgaGCAGGCCCGc -3'
miRNA:   3'- -AC-CCUCGUCcuaauGgaCGUCCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 43357 0.68 0.383167
Target:  5'- cGGGAGCGgcacgaaacGGAgauagcucGCCUGCacGGcGCCCGg -3'
miRNA:   3'- aCCCUCGU---------CCUaa------UGGACG--UC-CGGGC- -5'
12887 5' -58.6 NC_003387.1 + 25854 0.68 0.36575
Target:  5'- gUGGcGGCaAGGGUgGCCUGCAguugccgagcGGCCUGg -3'
miRNA:   3'- -ACCcUCG-UCCUAaUGGACGU----------CCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 52068 0.69 0.348887
Target:  5'- gGGGAGCAcau---CgUGCAGGCCCu -3'
miRNA:   3'- aCCCUCGUccuaauGgACGUCCGGGc -5'
12887 5' -58.6 NC_003387.1 + 39227 0.69 0.324647
Target:  5'- gUGGGAGCGGGuaccggcGCCggGCgAGGCCg- -3'
miRNA:   3'- -ACCCUCGUCCuaa----UGGa-CG-UCCGGgc -5'
12887 5' -58.6 NC_003387.1 + 5263 0.7 0.287081
Target:  5'- --uGuGCGGGcgUACCUGCAGGCgCa -3'
miRNA:   3'- accCuCGUCCuaAUGGACGUCCGgGc -5'
12887 5' -58.6 NC_003387.1 + 37913 0.71 0.234227
Target:  5'- cGGGcGCAGGGgugcccgACCUcGCucGGCCCGa -3'
miRNA:   3'- aCCCuCGUCCUaa-----UGGA-CGu-CCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 29412 0.73 0.179906
Target:  5'- cGGGcGCAGGAggagGCCgccGCAgcGGCCCGc -3'
miRNA:   3'- aCCCuCGUCCUaa--UGGa--CGU--CCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 42682 0.73 0.179906
Target:  5'- aUGGGGGCgAGGGUcACCggGCGgGGCUCGg -3'
miRNA:   3'- -ACCCUCG-UCCUAaUGGa-CGU-CCGGGC- -5'
12887 5' -58.6 NC_003387.1 + 4218 1.08 0.000479
Target:  5'- gUGGGAGCAGGAUUACCUGCAGGCCCGc -3'
miRNA:   3'- -ACCCUCGUCCUAAUGGACGUCCGGGC- -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.