miRNA display CGI


Results 1 - 20 of 36 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
30167 3' -56.4 NC_006273.1 + 156336 1.1 0.003927
Target:  5'- aACAACCCGUCGUCGCAAGCCGGGUUCg -3'
miRNA:   3'- -UGUUGGGCAGCAGCGUUCGGCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 140757 0.67 0.919869
Target:  5'- gACGAgCgCGUCa--GCAGGCCGGGUc- -3'
miRNA:   3'- -UGUUgG-GCAGcagCGUUCGGCCCAag -5'
30167 3' -56.4 NC_006273.1 + 227925 0.67 0.919869
Target:  5'- -gGGCCCGUCGUCGUgGAGuuGGa--- -3'
miRNA:   3'- ugUUGGGCAGCAGCG-UUCggCCcaag -5'
30167 3' -56.4 NC_006273.1 + 64984 0.67 0.930316
Target:  5'- uCAACUCGUUGgCGCGcGCCGuGGUcuUCa -3'
miRNA:   3'- uGUUGGGCAGCaGCGUuCGGC-CCA--AG- -5'
30167 3' -56.4 NC_006273.1 + 127329 0.67 0.937096
Target:  5'- cACAGCCgGUgGUCGUgcagcgcguucacguAAGCCGauagcGGUUCc -3'
miRNA:   3'- -UGUUGGgCAgCAGCG---------------UUCGGC-----CCAAG- -5'
30167 3' -56.4 NC_006273.1 + 116296 0.66 0.948532
Target:  5'- --uGCCCGUgCGgaccCGCGggacGGCgGGGUUCu -3'
miRNA:   3'- uguUGGGCA-GCa---GCGU----UCGgCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 100384 0.66 0.952536
Target:  5'- cGCAGa-CGUCGUCGCGuAGCCaGGcgCu -3'
miRNA:   3'- -UGUUggGCAGCAGCGU-UCGGcCCaaG- -5'
30167 3' -56.4 NC_006273.1 + 55616 0.66 0.956325
Target:  5'- cGCGACCCa-CGUCGCc-GCCGGucUCg -3'
miRNA:   3'- -UGUUGGGcaGCAGCGuuCGGCCcaAG- -5'
30167 3' -56.4 NC_006273.1 + 87337 0.66 0.956325
Target:  5'- uAUAACgaCGUCGUCGaCGAcgCGGGUUCu -3'
miRNA:   3'- -UGUUGg-GCAGCAGC-GUUcgGCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 128028 0.67 0.908529
Target:  5'- aACGACacucgagcaGUCGUUGCAuGgCGGGUUCc -3'
miRNA:   3'- -UGUUGgg-------CAGCAGCGUuCgGCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 51522 0.68 0.902527
Target:  5'- gACAACUCGcucUCGaCGgAGGCCGGGa-- -3'
miRNA:   3'- -UGUUGGGC---AGCaGCgUUCGGCCCaag -5'
30167 3' -56.4 NC_006273.1 + 127222 0.74 0.586433
Target:  5'- -aAACgCCGUggUGUCGCGccucgauguuGGCCGGGUUCa -3'
miRNA:   3'- ugUUG-GGCA--GCAGCGU----------UCGGCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 188010 0.72 0.685207
Target:  5'- gGCAACCgCGUCGUCGUugcuaucgucGCCGGuUUCg -3'
miRNA:   3'- -UGUUGG-GCAGCAGCGuu--------CGGCCcAAG- -5'
30167 3' -56.4 NC_006273.1 + 215896 0.7 0.779773
Target:  5'- cUggUCCGUCGUCuccCAucuGGUCGGGUUCg -3'
miRNA:   3'- uGuuGGGCAGCAGc--GU---UCGGCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 152406 0.69 0.846936
Target:  5'- aGCAGCuuGUCG-CGCucauAAGCCaGcGGUUCg -3'
miRNA:   3'- -UGUUGggCAGCaGCG----UUCGG-C-CCAAG- -5'
30167 3' -56.4 NC_006273.1 + 215020 0.69 0.846936
Target:  5'- cGCAGCgaCCGUCGUCugaGCAGugugggcgcuGCCGGGcUCg -3'
miRNA:   3'- -UGUUG--GGCAGCAG---CGUU----------CGGCCCaAG- -5'
30167 3' -56.4 NC_006273.1 + 228943 0.69 0.862037
Target:  5'- gGCggUCCa--GUgGCAGGcCCGGGUUCg -3'
miRNA:   3'- -UGuuGGGcagCAgCGUUC-GGCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 196833 0.69 0.862037
Target:  5'- uGCuGCCCG-CG-CGguGGCUGGGUUg -3'
miRNA:   3'- -UGuUGGGCaGCaGCguUCGGCCCAAg -5'
30167 3' -56.4 NC_006273.1 + 195518 0.68 0.876362
Target:  5'- cGCGGCCCuGUUG-CGCGuguuccuCCGGGUUCc -3'
miRNA:   3'- -UGUUGGG-CAGCaGCGUuc-----GGCCCAAG- -5'
30167 3' -56.4 NC_006273.1 + 136698 0.66 0.952536
Target:  5'- cCGGCCgGUCGcCGCc-GCCGcGGUUg -3'
miRNA:   3'- uGUUGGgCAGCaGCGuuCGGC-CCAAg -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.