miRNA display CGI


Results 1 - 20 of 28 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
27560 3' -56.7 NC_005882.1 + 18023 0.66 0.537687
Target:  5'- uCGCgGCGCgugACUgGGUCgACGGUG-Cg -3'
miRNA:   3'- cGCGaCGCG---UGAgCCAGgUGCUACuG- -5'
27560 3' -56.7 NC_005882.1 + 22006 0.66 0.526846
Target:  5'- cGUGCUGCGCcaGCUCaacGG-CCGCGgcGGu -3'
miRNA:   3'- -CGCGACGCG--UGAG---CCaGGUGCuaCUg -5'
27560 3' -56.7 NC_005882.1 + 31099 0.66 0.526846
Target:  5'- gGCGCcuugcugacgGCGuCAUUCgugagacggaGGUgCCGCGAUGACg -3'
miRNA:   3'- -CGCGa---------CGC-GUGAG----------CCA-GGUGCUACUG- -5'
27560 3' -56.7 NC_005882.1 + 29992 0.66 0.526846
Target:  5'- aGCGCUcgGCGCUCGccGUCCAgGccGGCa -3'
miRNA:   3'- -CGCGAcgCGUGAGC--CAGGUgCuaCUG- -5'
27560 3' -56.7 NC_005882.1 + 14754 0.66 0.526846
Target:  5'- -aGCUGCuCAa--GG-CCGCGAUGGCg -3'
miRNA:   3'- cgCGACGcGUgagCCaGGUGCUACUG- -5'
27560 3' -56.7 NC_005882.1 + 22468 0.66 0.516088
Target:  5'- gGCGC-GCGgGCUUGGUCgACGGc--- -3'
miRNA:   3'- -CGCGaCGCgUGAGCCAGgUGCUacug -5'
27560 3' -56.7 NC_005882.1 + 28272 0.66 0.512878
Target:  5'- gGCgGCcGCGCAggCGGUCUccagcgucacaucgGCGGUGGCc -3'
miRNA:   3'- -CG-CGaCGCGUgaGCCAGG--------------UGCUACUG- -5'
27560 3' -56.7 NC_005882.1 + 3415 0.66 0.50542
Target:  5'- cGCGgUGCGgGCa-GGUUcauuugCACGAUGGCg -3'
miRNA:   3'- -CGCgACGCgUGagCCAG------GUGCUACUG- -5'
27560 3' -56.7 NC_005882.1 + 29154 0.66 0.50542
Target:  5'- cGCGCUGaCGCugaagaUCGG-CUACGccGGCg -3'
miRNA:   3'- -CGCGAC-GCGug----AGCCaGGUGCuaCUG- -5'
27560 3' -56.7 NC_005882.1 + 12933 0.66 0.504358
Target:  5'- aGUGCUGCcgccggagcuguuGCGC-CGGcCCGCgccGAUGACc -3'
miRNA:   3'- -CGCGACG-------------CGUGaGCCaGGUG---CUACUG- -5'
27560 3' -56.7 NC_005882.1 + 19804 0.66 0.494847
Target:  5'- cGCGCgaGCGCGC-CGGcgUgACGAcGACg -3'
miRNA:   3'- -CGCGa-CGCGUGaGCCa-GgUGCUaCUG- -5'
27560 3' -56.7 NC_005882.1 + 30524 0.66 0.494847
Target:  5'- aUGCUGCGCg--CGG-CCGacaaGGUGACg -3'
miRNA:   3'- cGCGACGCGugaGCCaGGUg---CUACUG- -5'
27560 3' -56.7 NC_005882.1 + 14034 0.67 0.453628
Target:  5'- cCGCUGCGCcUUCGGU-CAgGAUG-Cg -3'
miRNA:   3'- cGCGACGCGuGAGCCAgGUgCUACuG- -5'
27560 3' -56.7 NC_005882.1 + 13433 0.67 0.443615
Target:  5'- aGCGCgaucGCGUcgaGCUUGG-CUuCGAUGACg -3'
miRNA:   3'- -CGCGa---CGCG---UGAGCCaGGuGCUACUG- -5'
27560 3' -56.7 NC_005882.1 + 2225 0.67 0.433729
Target:  5'- aGCGUUcaucgaaCGCGaugCGGUCUugGAUGGCa -3'
miRNA:   3'- -CGCGAc------GCGUga-GCCAGGugCUACUG- -5'
27560 3' -56.7 NC_005882.1 + 21914 0.68 0.414346
Target:  5'- gGCGCUccgggaaGUACUCGGUCaccaGCGcUGGCa -3'
miRNA:   3'- -CGCGAcg-----CGUGAGCCAGg---UGCuACUG- -5'
27560 3' -56.7 NC_005882.1 + 26611 0.68 0.377225
Target:  5'- cGCGCgGCGCACguaGUCCugguCGAUGGu -3'
miRNA:   3'- -CGCGaCGCGUGagcCAGGu---GCUACUg -5'
27560 3' -56.7 NC_005882.1 + 25426 0.69 0.356919
Target:  5'- -aGCUGCGCGCgaggcauacccgccUgGGggaCGCGAUGGCg -3'
miRNA:   3'- cgCGACGCGUG--------------AgCCag-GUGCUACUG- -5'
27560 3' -56.7 NC_005882.1 + 17153 0.69 0.342411
Target:  5'- aGCGcCUGCGCgucggcAUUCaGGUCgCGCGcgGACa -3'
miRNA:   3'- -CGC-GACGCG------UGAG-CCAG-GUGCuaCUG- -5'
27560 3' -56.7 NC_005882.1 + 3372 0.69 0.342411
Target:  5'- gGCGCUGCGCGgcCUgGGcuaCCGCGugcUGGCc -3'
miRNA:   3'- -CGCGACGCGU--GAgCCa--GGUGCu--ACUG- -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.