miRNA display CGI


Results 1 - 20 of 24 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
8164 3' -59.6 NC_001978.2 + 22447 0.66 0.445571
Target:  5'- cUGCCGUUCUGcacGUGaCUgacgaGACgUGGGCu -3'
miRNA:   3'- -ACGGCAAGGCa--CAC-GAg----CUGgGCCCG- -5'
8164 3' -59.6 NC_001978.2 + 16016 0.66 0.433143
Target:  5'- gGCCGgUCCGgaggGUccccaggguccgaaGggUGACCCGGGUa -3'
miRNA:   3'- aCGGCaAGGCa---CA--------------CgaGCUGGGCCCG- -5'
8164 3' -59.6 NC_001978.2 + 18930 0.66 0.39891
Target:  5'- aGCaugGUUCgG-GUGaCUCGACCCGGcacGCu -3'
miRNA:   3'- aCGg--CAAGgCaCAC-GAGCUGGGCC---CG- -5'
8164 3' -59.6 NC_001978.2 + 39188 0.66 0.39891
Target:  5'- aGCC---CCGUGaUGCU--GCCCGGGUg -3'
miRNA:   3'- aCGGcaaGGCAC-ACGAgcUGGGCCCG- -5'
8164 3' -59.6 NC_001978.2 + 11955 0.67 0.38996
Target:  5'- aGCCGcaaCCG-GUGaUC-ACCCGGGCc -3'
miRNA:   3'- aCGGCaa-GGCaCACgAGcUGGGCCCG- -5'
8164 3' -59.6 NC_001978.2 + 39163 0.67 0.38996
Target:  5'- cGCUGacgCCGU--GC-CGACCCGGGg -3'
miRNA:   3'- aCGGCaa-GGCAcaCGaGCUGGGCCCg -5'
8164 3' -59.6 NC_001978.2 + 23197 0.67 0.38996
Target:  5'- gGUCGUUcCCGUcGcGCUCGACaaGuGGCg -3'
miRNA:   3'- aCGGCAA-GGCA-CaCGAGCUGggC-CCG- -5'
8164 3' -59.6 NC_001978.2 + 33575 0.67 0.372458
Target:  5'- cGCCGUgaCCGUcggGUGU--GACCCcGGGCc -3'
miRNA:   3'- aCGGCAa-GGCA---CACGagCUGGG-CCCG- -5'
8164 3' -59.6 NC_001978.2 + 1414 0.67 0.372458
Target:  5'- aGCCGUUCCG---GCUCcuUCCGuGGCa -3'
miRNA:   3'- aCGGCAAGGCacaCGAGcuGGGC-CCG- -5'
8164 3' -59.6 NC_001978.2 + 25540 0.67 0.369022
Target:  5'- gGUCGUUCCGcUGaagggauucgacgGCgUGACCCGuGGCg -3'
miRNA:   3'- aCGGCAAGGC-ACa------------CGaGCUGGGC-CCG- -5'
8164 3' -59.6 NC_001978.2 + 11480 0.67 0.363909
Target:  5'- gGCCGUUCgGUcGgacGCUgCG-CCCGGGa -3'
miRNA:   3'- aCGGCAAGgCA-Ca--CGA-GCuGGGCCCg -5'
8164 3' -59.6 NC_001978.2 + 4596 0.67 0.355498
Target:  5'- -aCC-UUCCGcGUGCUCGACggUGGGCa -3'
miRNA:   3'- acGGcAAGGCaCACGAGCUGg-GCCCG- -5'
8164 3' -59.6 NC_001978.2 + 35626 0.67 0.347224
Target:  5'- cGCCGUcUCCG---GCUCGACauCCGGcGCu -3'
miRNA:   3'- aCGGCA-AGGCacaCGAGCUG--GGCC-CG- -5'
8164 3' -59.6 NC_001978.2 + 6805 0.68 0.323236
Target:  5'- cUGCCGUgaacgCCGaccuUGUG-UCGGuCCCGGGg -3'
miRNA:   3'- -ACGGCAa----GGC----ACACgAGCU-GGGCCCg -5'
8164 3' -59.6 NC_001978.2 + 13163 0.68 0.310957
Target:  5'- gGgCGUUCCGgccuugugGUGCUccgcgacggcgaaccCGACUgGGGCg -3'
miRNA:   3'- aCgGCAAGGCa-------CACGA---------------GCUGGgCCCG- -5'
8164 3' -59.6 NC_001978.2 + 23799 0.69 0.258795
Target:  5'- uUGCCGacuaGUGgcagcGCUCGACCCGGcGUc -3'
miRNA:   3'- -ACGGCaaggCACa----CGAGCUGGGCC-CG- -5'
8164 3' -59.6 NC_001978.2 + 2711 0.7 0.245981
Target:  5'- cGCgUGUUCCuucGUGaUGCgcgCGcCCCGGGCg -3'
miRNA:   3'- aCG-GCAAGG---CAC-ACGa--GCuGGGCCCG- -5'
8164 3' -59.6 NC_001978.2 + 5157 0.7 0.239774
Target:  5'- cGCCGUUCUucGUGCgggCaACCUGGGUg -3'
miRNA:   3'- aCGGCAAGGcaCACGa--GcUGGGCCCG- -5'
8164 3' -59.6 NC_001978.2 + 25934 0.72 0.170014
Target:  5'- gUGcCCGUUCCGgguacgaccuuacUGacugGCgugagcgCGACCCGGGCa -3'
miRNA:   3'- -AC-GGCAAGGC-------------ACa---CGa------GCUGGGCCCG- -5'
8164 3' -59.6 NC_001978.2 + 16712 0.72 0.165956
Target:  5'- cGCCGUUCCGcUGcccauUGCgUCGaccgugcuucaGCCUGGGCg -3'
miRNA:   3'- aCGGCAAGGC-AC-----ACG-AGC-----------UGGGCCCG- -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.