miRNA display CGI


Results 1 - 20 of 23 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
18357 3' -56.2 NC_004681.1 + 22739 0.66 0.709587
Target:  5'- aGGCgAUcuGCUUGCGCGCg--GCGCu- -3'
miRNA:   3'- aUCGgUG--UGAACGCGUGacaCGCGug -5'
18357 3' -56.2 NC_004681.1 + 39829 0.66 0.709587
Target:  5'- gUGGaCCGCACcgcGCGCACcGcgcccGCGCGCg -3'
miRNA:   3'- -AUC-GGUGUGaa-CGCGUGaCa----CGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 8239 0.66 0.709587
Target:  5'- aGGCCGagguCgagGCGCACga-GCGCGCg -3'
miRNA:   3'- aUCGGUgu--Gaa-CGCGUGacaCGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 16218 0.66 0.698821
Target:  5'- aAGCCgauacccgACACagccgugGCG-GCUGUGCGCGCc -3'
miRNA:   3'- aUCGG--------UGUGaa-----CGCgUGACACGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 60940 0.66 0.677107
Target:  5'- gUGGCUugACg---GUGCUGUGCGCAa -3'
miRNA:   3'- -AUCGGugUGaacgCGUGACACGCGUg -5'
18357 3' -56.2 NC_004681.1 + 5430 0.66 0.66618
Target:  5'- -uGCCA-----GCGC-CUGUGCGCGCu -3'
miRNA:   3'- auCGGUgugaaCGCGuGACACGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 42360 0.66 0.655222
Target:  5'- cAGCCGCAagugccGCGCAUcGgagGCGUACg -3'
miRNA:   3'- aUCGGUGUgaa---CGCGUGaCa--CGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 34346 0.66 0.655222
Target:  5'- -cGCCGCGgcgGCGUGagggUUGUGCGCGCu -3'
miRNA:   3'- auCGGUGUgaaCGCGU----GACACGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 62171 0.66 0.65193
Target:  5'- aGGCCGcCAUgccGCGCACagucaucguggucuUGUGCGUGCc -3'
miRNA:   3'- aUCGGU-GUGaa-CGCGUG--------------ACACGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 14503 0.67 0.62226
Target:  5'- cGGCCGCcuGCUUGCGC-UUG-GCGUcgGCg -3'
miRNA:   3'- aUCGGUG--UGAACGCGuGACaCGCG--UG- -5'
18357 3' -56.2 NC_004681.1 + 67117 0.67 0.589374
Target:  5'- -uGCCAgugaGCUUGCGCAUggccugcgacaUGagGCGCGCg -3'
miRNA:   3'- auCGGUg---UGAACGCGUG-----------ACa-CGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 49343 0.68 0.578472
Target:  5'- cGGCgGCGCcgcggGCGCugaccACUGgGCGCACa -3'
miRNA:   3'- aUCGgUGUGaa---CGCG-----UGACaCGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 24299 0.68 0.578472
Target:  5'- aGGCCGCGgUUGaucgGCuuguugGUGCGCACg -3'
miRNA:   3'- aUCGGUGUgAACg---CGuga---CACGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 69043 0.68 0.577385
Target:  5'- gGGCCGCACcUGCgacaccgauggcuGCGCcuuucagugGUGCGUACa -3'
miRNA:   3'- aUCGGUGUGaACG-------------CGUGa--------CACGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 26304 0.68 0.577385
Target:  5'- gUGGCCGCAC-UGCGCcgggucgAUUGUGuCGaCGCu -3'
miRNA:   3'- -AUCGGUGUGaACGCG-------UGACAC-GC-GUG- -5'
18357 3' -56.2 NC_004681.1 + 35466 0.68 0.567615
Target:  5'- aAGCCACG--UGCGCg--GUGUGUACg -3'
miRNA:   3'- aUCGGUGUgaACGCGugaCACGCGUG- -5'
18357 3' -56.2 NC_004681.1 + 44524 0.68 0.555732
Target:  5'- cAGCCACGCUggGCGCGCgcgucccacacccUGUG-GCGa -3'
miRNA:   3'- aUCGGUGUGAa-CGCGUG-------------ACACgCGUg -5'
18357 3' -56.2 NC_004681.1 + 33373 0.69 0.524782
Target:  5'- cGGCCGCGuCgcGCGCGCcGUGUgGCACc -3'
miRNA:   3'- aUCGGUGU-GaaCGCGUGaCACG-CGUG- -5'
18357 3' -56.2 NC_004681.1 + 70869 0.69 0.483234
Target:  5'- cAGCCAUcCUUGCGUugACUGUcCGCAa -3'
miRNA:   3'- aUCGGUGuGAACGCG--UGACAcGCGUg -5'
18357 3' -56.2 NC_004681.1 + 74518 0.73 0.304529
Target:  5'- -cGCCAgaGCgUGCGCACaGUGCGCAa -3'
miRNA:   3'- auCGGUg-UGaACGCGUGaCACGCGUg -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.