miRNA display CGI


Results 1 - 20 of 68 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
23466 3' -60 NC_005259.1 + 687 0.66 0.544106
Target:  5'- aGCGUCaAGGCCGaGGgGGUcugaacaugagguggCAUCGCg -3'
miRNA:   3'- -CGCAGcUCCGGC-CCgUCGa--------------GUAGCGg -5'
23466 3' -60 NC_005259.1 + 938 0.68 0.42723
Target:  5'- cGCGacagCGGaaaaGUCGGGCAGCUCG-CGCa -3'
miRNA:   3'- -CGCa---GCUc---CGGCCCGUCGAGUaGCGg -5'
23466 3' -60 NC_005259.1 + 1595 0.73 0.217122
Target:  5'- -gGUCGAGGUCaGGGCAcaauuggcccucGuCUCGUCGCUa -3'
miRNA:   3'- cgCAGCUCCGG-CCCGU------------C-GAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 3318 0.78 0.089079
Target:  5'- uGCGUCGAcgugaGcGCCGGGCAGCUCugcgUGCUc -3'
miRNA:   3'- -CGCAGCU-----C-CGGCCCGUCGAGua--GCGG- -5'
23466 3' -60 NC_005259.1 + 4262 0.68 0.454894
Target:  5'- cUG-CGAGGacaaCGGGCGGCUgCGcUGCCa -3'
miRNA:   3'- cGCaGCUCCg---GCCCGUCGA-GUaGCGG- -5'
23466 3' -60 NC_005259.1 + 4348 0.71 0.270925
Target:  5'- cGCGgugaUGAGcGCCGgacGGCAcgcccgugcccuGCUCAUCGCCa -3'
miRNA:   3'- -CGCa---GCUC-CGGC---CCGU------------CGAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 5905 0.69 0.391945
Target:  5'- aCGUCGAGGUCGaGguGCUgcgcacCGUCGaCCg -3'
miRNA:   3'- cGCAGCUCCGGCcCguCGA------GUAGC-GG- -5'
23466 3' -60 NC_005259.1 + 6937 0.66 0.522917
Target:  5'- cGCcUUGAGGCCG---AGCUCGcCGCCg -3'
miRNA:   3'- -CGcAGCUCCGGCccgUCGAGUaGCGG- -5'
23466 3' -60 NC_005259.1 + 7341 0.69 0.358613
Target:  5'- aCGUCGAGGCCGGaCAGacgUUcgUGCUg -3'
miRNA:   3'- cGCAGCUCCGGCCcGUCg--AGuaGCGG- -5'
23466 3' -60 NC_005259.1 + 8752 0.67 0.493225
Target:  5'- cCGUCGAGGUCGaGGCccuuGGC-CAgCGCg -3'
miRNA:   3'- cGCAGCUCCGGC-CCG----UCGaGUaGCGg -5'
23466 3' -60 NC_005259.1 + 9489 0.67 0.493225
Target:  5'- cGCGcaUCGAGGCgaGGaacguGC-GCUCGUCGCg -3'
miRNA:   3'- -CGC--AGCUCCGg-CC-----CGuCGAGUAGCGg -5'
23466 3' -60 NC_005259.1 + 10629 0.76 0.126205
Target:  5'- uGCGUCGAGGCCGaaCAGCUUGgccUCGCg -3'
miRNA:   3'- -CGCAGCUCCGGCccGUCGAGU---AGCGg -5'
23466 3' -60 NC_005259.1 + 11307 0.77 0.104714
Target:  5'- gGCGU-GAGGCCGaGacgggcgcGCAGCUCGUCGUCg -3'
miRNA:   3'- -CGCAgCUCCGGC-C--------CGUCGAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 11779 0.67 0.473865
Target:  5'- aCGgCGAGGgagucccacacaUCGGGCgcgacccgcuugAGCUCGUCGCUg -3'
miRNA:   3'- cGCaGCUCC------------GGCCCG------------UCGAGUAGCGG- -5'
23466 3' -60 NC_005259.1 + 14091 0.66 0.541061
Target:  5'- uGCGcagCGAGGUCGaGGguGCggaaacgcaugcCAUCGCg -3'
miRNA:   3'- -CGCa--GCUCCGGC-CCguCGa-----------GUAGCGg -5'
23466 3' -60 NC_005259.1 + 14231 0.7 0.312443
Target:  5'- cGCGUCGugcguaucGGGCCGGGCAaCgacgaccgUGUCGUCa -3'
miRNA:   3'- -CGCAGC--------UCCGGCCCGUcGa-------GUAGCGG- -5'
23466 3' -60 NC_005259.1 + 16812 0.68 0.430861
Target:  5'- cGCGcUCGGGGCCgGGGUcaugauccgacacaaGGCggGUgGCCa -3'
miRNA:   3'- -CGC-AGCUCCGG-CCCG---------------UCGagUAgCGG- -5'
23466 3' -60 NC_005259.1 + 17080 0.67 0.464329
Target:  5'- uGCGUC-AGGCCgccgauauuGGGCugucgaucauGUUCAUCGCg -3'
miRNA:   3'- -CGCAGcUCCGG---------CCCGu---------CGAGUAGCGg -5'
23466 3' -60 NC_005259.1 + 17353 0.79 0.079916
Target:  5'- cCGUCGAGGUC-GGCGGCUCggCGCUg -3'
miRNA:   3'- cGCAGCUCCGGcCCGUCGAGuaGCGG- -5'
23466 3' -60 NC_005259.1 + 17802 0.71 0.277523
Target:  5'- cGCGauagCGAGGCCGGuG-AGCUCAgcgagGCCa -3'
miRNA:   3'- -CGCa---GCUCCGGCC-CgUCGAGUag---CGG- -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.