miRNA display CGI


Results 1 - 20 of 88 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
28986 3' -59.8 NC_006146.1 + 147044 0.66 0.768291
Target:  5'- gACgCGGCCCCGag-CCAg-GCCCGGg -3'
miRNA:   3'- gUGaGUCGGGGCacaGGUgaCGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 98069 0.74 0.321598
Target:  5'- gGCUCAgGCCCuCGU-UCCACgGCCCGGg -3'
miRNA:   3'- gUGAGU-CGGG-GCAcAGGUGaCGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 148705 0.71 0.486674
Target:  5'- uGCUCuccacccuGGCCCCGggGUCCACcguggUGaCCCAGg -3'
miRNA:   3'- gUGAG--------UCGGGGCa-CAGGUG-----AC-GGGUC- -5'
28986 3' -59.8 NC_006146.1 + 128162 0.71 0.486674
Target:  5'- aCACUaGGUCCCG-GUCC-CUGCCCu- -3'
miRNA:   3'- -GUGAgUCGGGGCaCAGGuGACGGGuc -5'
28986 3' -59.8 NC_006146.1 + 92745 0.7 0.524373
Target:  5'- -uCUgAGaCCCCaggGUGUagCCGCUGCCCAGg -3'
miRNA:   3'- guGAgUC-GGGG---CACA--GGUGACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 71397 0.7 0.543639
Target:  5'- aCGCUaCGGCCCCGcUGgacuUCUACUGgCCCAc -3'
miRNA:   3'- -GUGA-GUCGGGGC-AC----AGGUGAC-GGGUc -5'
28986 3' -59.8 NC_006146.1 + 128468 0.69 0.582805
Target:  5'- gGCUCGGCCgccgCCGUGggccUCACguaguggGCCCAGa -3'
miRNA:   3'- gUGAGUCGG----GGCACa---GGUGa------CGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 125378 0.68 0.622505
Target:  5'- gUugUCAGCCUCGguUGUCUuuccucugauGCUGCuCCGGg -3'
miRNA:   3'- -GugAGUCGGGGC--ACAGG----------UGACG-GGUC- -5'
28986 3' -59.8 NC_006146.1 + 48278 0.68 0.636448
Target:  5'- gCugUCGGCCgCCGUGagcgaguacguggaCCgcacGCUGCCCGGg -3'
miRNA:   3'- -GugAGUCGG-GGCACa-------------GG----UGACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 67429 0.68 0.652375
Target:  5'- ---cCAGCCuCCGUGgcuUCCugUGCCUGGc -3'
miRNA:   3'- gugaGUCGG-GGCAC---AGGugACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 108390 0.66 0.767373
Target:  5'- cCACUaCAGCCgugucggCCGUGUaCA-UGCCCAGg -3'
miRNA:   3'- -GUGA-GUCGG-------GGCACAgGUgACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 58838 0.66 0.759061
Target:  5'- aGCUCggggacaaagAGCCCCGUGaaga-UGCCCGGg -3'
miRNA:   3'- gUGAG----------UCGGGGCACaggugACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 42051 0.66 0.749725
Target:  5'- uCACgaGGCCCCGguagccccUGgCCACgGCCCGGg -3'
miRNA:   3'- -GUGagUCGGGGC--------ACaGGUGaCGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 40933 0.66 0.740291
Target:  5'- gGC-CAGCCCCaagcacggGcCCGcCUGCCCGGa -3'
miRNA:   3'- gUGaGUCGGGGca------CaGGU-GACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 34258 0.67 0.721163
Target:  5'- ---cCGGCCCCGUG-CCACgggaccCCCGGc -3'
miRNA:   3'- gugaGUCGGGGCACaGGUGac----GGGUC- -5'
28986 3' -59.8 NC_006146.1 + 58051 0.67 0.682106
Target:  5'- gACgUCGGCCUCGggGUCCACguugGCCUu- -3'
miRNA:   3'- gUG-AGUCGGGGCa-CAGGUGa---CGGGuc -5'
28986 3' -59.8 NC_006146.1 + 98517 0.68 0.662311
Target:  5'- gCGCcCGGCCCCGUG-CCAgacgGCCaCGGa -3'
miRNA:   3'- -GUGaGUCGGGGCACaGGUga--CGG-GUC- -5'
28986 3' -59.8 NC_006146.1 + 107537 0.66 0.786397
Target:  5'- aACaUgAGCCCCaGgaggGcCCugUGCCCAGu -3'
miRNA:   3'- gUG-AgUCGGGG-Ca---CaGGugACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 17365 1.07 0.001772
Target:  5'- cCACUCAGCCCCGUGUCCACUGCCCAGu -3'
miRNA:   3'- -GUGAGUCGGGGCACAGGUGACGGGUC- -5'
28986 3' -59.8 NC_006146.1 + 20443 1.07 0.001772
Target:  5'- cCACUCAGCCCCGUGUCCACUGCCCAGu -3'
miRNA:   3'- -GUGAGUCGGGGCACAGGUGACGGGUC- -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.