miRNA display CGI


Results 1 - 20 of 25 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
24900 3' -56.5 NC_005284.1 + 32976 0.66 0.66615
Target:  5'- -cGCCgGGCAcGC-CGUCGccaccgGCUGCCg -3'
miRNA:   3'- uuUGGgCCGU-CGcGCAGCca----UGAUGG- -5'
24900 3' -56.5 NC_005284.1 + 21524 0.66 0.655234
Target:  5'- -cGCgCGGCAGCaucgcccacuGCGgaggCGGUGC-GCCu -3'
miRNA:   3'- uuUGgGCCGUCG----------CGCa---GCCAUGaUGG- -5'
24900 3' -56.5 NC_005284.1 + 48954 0.66 0.654141
Target:  5'- --cCCCGGCGGacugcauCGaCGaagCGGUGCUGCg -3'
miRNA:   3'- uuuGGGCCGUC-------GC-GCa--GCCAUGAUGg -5'
24900 3' -56.5 NC_005284.1 + 51404 0.66 0.644297
Target:  5'- cGACgCGGCggaAGUGCGggcacaGuGUGCUGCCg -3'
miRNA:   3'- uUUGgGCCG---UCGCGCag----C-CAUGAUGG- -5'
24900 3' -56.5 NC_005284.1 + 13437 0.66 0.626779
Target:  5'- -uGCCCGGCuauuucuacggaaauAGCGgGUCGGUGg---- -3'
miRNA:   3'- uuUGGGCCG---------------UCGCgCAGCCAUgaugg -5'
24900 3' -56.5 NC_005284.1 + 49972 0.66 0.6224
Target:  5'- cGAAgUCGGUuucuGUGCGccuUCGGcUACUGCCg -3'
miRNA:   3'- -UUUgGGCCGu---CGCGC---AGCC-AUGAUGG- -5'
24900 3' -56.5 NC_005284.1 + 53706 0.66 0.611459
Target:  5'- -uGCgCUGGCgaucuuagacAGCaCGUCGGUAgUACCg -3'
miRNA:   3'- uuUG-GGCCG----------UCGcGCAGCCAUgAUGG- -5'
24900 3' -56.5 NC_005284.1 + 40065 0.67 0.557195
Target:  5'- cAAACCCGGCuGCuCGUCGcucuuCUGCUc -3'
miRNA:   3'- -UUUGGGCCGuCGcGCAGCcau--GAUGG- -5'
24900 3' -56.5 NC_005284.1 + 47787 0.68 0.525282
Target:  5'- cAGCCCGGCgAGCGCcauGUCGaGcGC-GCCa -3'
miRNA:   3'- uUUGGGCCG-UCGCG---CAGC-CaUGaUGG- -5'
24900 3' -56.5 NC_005284.1 + 10194 0.68 0.514796
Target:  5'- ---gCUGGCGGCG-GUCGGcgGCUuACCg -3'
miRNA:   3'- uuugGGCCGUCGCgCAGCCa-UGA-UGG- -5'
24900 3' -56.5 NC_005284.1 + 15888 0.68 0.513752
Target:  5'- cGACCgcagaGGCGGUGCGcgcgcuaUCGGUGCUGauucCCg -3'
miRNA:   3'- uUUGGg----CCGUCGCGC-------AGCCAUGAU----GG- -5'
24900 3' -56.5 NC_005284.1 + 41332 0.68 0.504395
Target:  5'- cAAGCuUCGGCGGCGCGUaucaGGUcauCUgGCCu -3'
miRNA:   3'- -UUUG-GGCCGUCGCGCAg---CCAu--GA-UGG- -5'
24900 3' -56.5 NC_005284.1 + 10235 0.68 0.504395
Target:  5'- uGGGCaCGGUGGCGC-UUGGgGCUGCCg -3'
miRNA:   3'- -UUUGgGCCGUCGCGcAGCCaUGAUGG- -5'
24900 3' -56.5 NC_005284.1 + 21828 0.69 0.487947
Target:  5'- -uGCCCGGCgcuuccagcgccgccGGCGUGggcgaUGGUGCcGCCg -3'
miRNA:   3'- uuUGGGCCG---------------UCGCGCa----GCCAUGaUGG- -5'
24900 3' -56.5 NC_005284.1 + 21318 0.69 0.483874
Target:  5'- cAGCgCCGGCcgacGGCGCGUguaagcacugCGGaucgACUACCg -3'
miRNA:   3'- uUUG-GGCCG----UCGCGCA----------GCCa---UGAUGG- -5'
24900 3' -56.5 NC_005284.1 + 5404 0.69 0.453872
Target:  5'- -uGCCCGuGCGGCGCGccagcucgcgcUCGGcgaaGCUGCg -3'
miRNA:   3'- uuUGGGC-CGUCGCGC-----------AGCCa---UGAUGg -5'
24900 3' -56.5 NC_005284.1 + 45647 0.7 0.424909
Target:  5'- cAGgCUGGCGGCuCGUCGGUGCgcgagGCg -3'
miRNA:   3'- uUUgGGCCGUCGcGCAGCCAUGa----UGg -5'
24900 3' -56.5 NC_005284.1 + 3233 0.7 0.424909
Target:  5'- uGAACa-GGCAGCGCGaCGGUccCUGCUg -3'
miRNA:   3'- -UUUGggCCGUCGCGCaGCCAu-GAUGG- -5'
24900 3' -56.5 NC_005284.1 + 27675 0.7 0.406224
Target:  5'- cGGgCCGGCguGGCGCG-CGGgucgccGCUGCCu -3'
miRNA:   3'- uUUgGGCCG--UCGCGCaGCCa-----UGAUGG- -5'
24900 3' -56.5 NC_005284.1 + 22447 0.7 0.388064
Target:  5'- aGAACUCGGCguGGaCGCuUCGGccgACUGCCa -3'
miRNA:   3'- -UUUGGGCCG--UC-GCGcAGCCa--UGAUGG- -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.