miRNA display CGI


Results 1 - 20 of 38 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
23358 3' -60.4 NC_005259.1 + 61859 0.66 0.550559
Target:  5'- -cUCGGcCACCGCcuCGCgUGCCGcguGAUCa -3'
miRNA:   3'- ccAGCCuGUGGCGc-GCG-ACGGC---CUAG- -5'
23358 3' -60.4 NC_005259.1 + 9657 0.69 0.373248
Target:  5'- cGUCGGuauGC-CCGUuguuccacauGCGCUGCCGG-UCg -3'
miRNA:   3'- cCAGCC---UGuGGCG----------CGCGACGGCCuAG- -5'
23358 3' -60.4 NC_005259.1 + 44160 0.68 0.390064
Target:  5'- cGGUCGaGCAgCGCGcCGgUGUCGGAg- -3'
miRNA:   3'- -CCAGCcUGUgGCGC-GCgACGGCCUag -5'
23358 3' -60.4 NC_005259.1 + 67796 0.68 0.390064
Target:  5'- uGUUGG-CACCGCGUGCgagcuugaGCCcGAUCu -3'
miRNA:   3'- cCAGCCuGUGGCGCGCGa-------CGGcCUAG- -5'
23358 3' -60.4 NC_005259.1 + 60775 0.68 0.398656
Target:  5'- aGGUUGGGCugCGCGaacagaucagcCGCguacacccgagGCCGGAaaUCg -3'
miRNA:   3'- -CCAGCCUGugGCGC-----------GCGa----------CGGCCU--AG- -5'
23358 3' -60.4 NC_005259.1 + 11240 0.68 0.407369
Target:  5'- gGGcUCGGGCAUCGCGCGCaccacGUgGGcuUCg -3'
miRNA:   3'- -CC-AGCCUGUGGCGCGCGa----CGgCCu-AG- -5'
23358 3' -60.4 NC_005259.1 + 68703 0.68 0.407369
Target:  5'- aGG-CGGGCAgCGCGuCGgUGCCcgagaacugGGGUCg -3'
miRNA:   3'- -CCaGCCUGUgGCGC-GCgACGG---------CCUAG- -5'
23358 3' -60.4 NC_005259.1 + 53701 0.68 0.407369
Target:  5'- cGGUCaacgugaacguGGuCACCGCGcCGCUgauggugaugucGCCGGGUg -3'
miRNA:   3'- -CCAG-----------CCuGUGGCGC-GCGA------------CGGCCUAg -5'
23358 3' -60.4 NC_005259.1 + 27482 0.68 0.416199
Target:  5'- gGGUCGGuguggcCACCGCcccaCGC-GCCGaGGUCg -3'
miRNA:   3'- -CCAGCCu-----GUGGCGc---GCGaCGGC-CUAG- -5'
23358 3' -60.4 NC_005259.1 + 44913 0.69 0.348962
Target:  5'- uGUgGGcCGCCGCauacGCGCUGaUCGGGUCc -3'
miRNA:   3'- cCAgCCuGUGGCG----CGCGAC-GGCCUAG- -5'
23358 3' -60.4 NC_005259.1 + 22209 0.7 0.333408
Target:  5'- cGUUGGcCACCGCGCaccgccgcgagGCUGUCGGuuuccGUCg -3'
miRNA:   3'- cCAGCCuGUGGCGCG-----------CGACGGCC-----UAG- -5'
23358 3' -60.4 NC_005259.1 + 57234 0.7 0.333408
Target:  5'- gGGUCGGAgAuCCaCGuCGUUGCCGGGa- -3'
miRNA:   3'- -CCAGCCUgU-GGcGC-GCGACGGCCUag -5'
23358 3' -60.4 NC_005259.1 + 58573 0.75 0.136249
Target:  5'- gGGcCGGAuCGCgGCGCgGCUGCCGGGc- -3'
miRNA:   3'- -CCaGCCU-GUGgCGCG-CGACGGCCUag -5'
23358 3' -60.4 NC_005259.1 + 63677 0.74 0.172166
Target:  5'- -cUCGGGCACCG-GCGC-GCCGGGg- -3'
miRNA:   3'- ccAGCCUGUGGCgCGCGaCGGCCUag -5'
23358 3' -60.4 NC_005259.1 + 44326 0.74 0.176642
Target:  5'- uGUUGaGCGCCGCGUaGCUGCCGGGc- -3'
miRNA:   3'- cCAGCcUGUGGCGCG-CGACGGCCUag -5'
23358 3' -60.4 NC_005259.1 + 17885 0.73 0.1951
Target:  5'- cGGUUGGacccccGCACCGCGCGCcgaugcguguggaUGCCcGGUCu -3'
miRNA:   3'- -CCAGCC------UGUGGCGCGCG-------------ACGGcCUAG- -5'
23358 3' -60.4 NC_005259.1 + 6439 0.72 0.227343
Target:  5'- uGUCGG-CACCGuCGCGCUGaUCGGcagcGUCg -3'
miRNA:   3'- cCAGCCuGUGGC-GCGCGAC-GGCC----UAG- -5'
23358 3' -60.4 NC_005259.1 + 52023 0.71 0.263346
Target:  5'- cGUCaGGccgccGCACUGCGCGCUGUCgccgucgaGGAUCg -3'
miRNA:   3'- cCAG-CC-----UGUGGCGCGCGACGG--------CCUAG- -5'
23358 3' -60.4 NC_005259.1 + 31720 0.71 0.269778
Target:  5'- cGGUCuucucugaGGugACCGCGC-CUGCCGcGAg- -3'
miRNA:   3'- -CCAG--------CCugUGGCGCGcGACGGC-CUag -5'
23358 3' -60.4 NC_005259.1 + 16799 0.7 0.311041
Target:  5'- cGGUCGcGuACAUCGCGCuCgggGCCgGGGUCa -3'
miRNA:   3'- -CCAGC-C-UGUGGCGCGcGa--CGG-CCUAG- -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.