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
20553 5' -56.1 NC_004688.1 + 17677 0.66 0.840502
Target:  5'- ---gGGUuccggCGCGGGccGCuUGGCGGGCCg -3'
miRNA:   3'- uacgCCAua---GCGUCC--UG-ACUGUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 33913 0.66 0.832016
Target:  5'- -aGCGccAUUGCcgccGGACUGAaAGGCCg -3'
miRNA:   3'- uaCGCcaUAGCGu---CCUGACUgUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 58387 0.66 0.831157
Target:  5'- -cGCGGUGUgGCuggcGGGCuucgcccUGGC-GGCCg -3'
miRNA:   3'- uaCGCCAUAgCGu---CCUG-------ACUGuCCGG- -5'
20553 5' -56.1 NC_004688.1 + 16972 0.66 0.831157
Target:  5'- gGUGCGGgcgaugacGUCGgccuguuCGGGgccGCUGGCGGGCUu -3'
miRNA:   3'- -UACGCCa-------UAGC-------GUCC---UGACUGUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 73319 0.66 0.823339
Target:  5'- -cGCGGgagUGCAgGGACUG-CAGccGCCg -3'
miRNA:   3'- uaCGCCauaGCGU-CCUGACuGUC--CGG- -5'
20553 5' -56.1 NC_004688.1 + 60620 0.66 0.823339
Target:  5'- -aGCGGcUGUCGCu--AUcGACGGGCCu -3'
miRNA:   3'- uaCGCC-AUAGCGuccUGaCUGUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 73721 0.66 0.812682
Target:  5'- -gGCGGUugauccaGUCGUAGaGAgUGGauucauuCAGGCCg -3'
miRNA:   3'- uaCGCCA-------UAGCGUC-CUgACU-------GUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 846 0.66 0.805438
Target:  5'- -gGCGGUGUggcaGCGGGACggGAaugccuuuuuuCAGGCa -3'
miRNA:   3'- uaCGCCAUAg---CGUCCUGa-CU-----------GUCCGg -5'
20553 5' -56.1 NC_004688.1 + 77210 0.67 0.796234
Target:  5'- -cGCGGUAUCGgAcGA-UGGCGGcGCCg -3'
miRNA:   3'- uaCGCCAUAGCgUcCUgACUGUC-CGG- -5'
20553 5' -56.1 NC_004688.1 + 34256 0.67 0.777364
Target:  5'- -aGUGGUGaacUCGUAGGuauCcGACGGGUCc -3'
miRNA:   3'- uaCGCCAU---AGCGUCCu--GaCUGUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 61825 0.67 0.757943
Target:  5'- -gGCGGUAguugcCGCGGGGCUcGuCGGaGCUg -3'
miRNA:   3'- uaCGCCAUa----GCGUCCUGA-CuGUC-CGG- -5'
20553 5' -56.1 NC_004688.1 + 41488 0.67 0.754987
Target:  5'- -gGUGGUggCGCcuucGGACUGGCGaccuggguuguaccGGCCg -3'
miRNA:   3'- uaCGCCAuaGCGu---CCUGACUGU--------------CCGG- -5'
20553 5' -56.1 NC_004688.1 + 102367 0.67 0.748051
Target:  5'- -gGCGGa---GCAGGugUGGCcGGUCu -3'
miRNA:   3'- uaCGCCauagCGUCCugACUGuCCGG- -5'
20553 5' -56.1 NC_004688.1 + 79470 0.67 0.748051
Target:  5'- -cGCGGUcUCG----GCUGAUAGGCCa -3'
miRNA:   3'- uaCGCCAuAGCguccUGACUGUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 55391 0.68 0.727952
Target:  5'- -aGCGGagcAUCGCcgccGGGCUcGGCuGGCCg -3'
miRNA:   3'- uaCGCCa--UAGCGu---CCUGA-CUGuCCGG- -5'
20553 5' -56.1 NC_004688.1 + 30399 0.68 0.707503
Target:  5'- uUGCGGauaaugGUCGcCAGGGCgcccggGAaCAGGUCg -3'
miRNA:   3'- uACGCCa-----UAGC-GUCCUGa-----CU-GUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 42322 0.68 0.697172
Target:  5'- -cGCGGUcgGUgaacUGCAGGACgucgGGCGuccGGCCg -3'
miRNA:   3'- uaCGCCA--UA----GCGUCCUGa---CUGU---CCGG- -5'
20553 5' -56.1 NC_004688.1 + 75640 0.69 0.665872
Target:  5'- -cGgGGUGUCGUcccaGGGGCUcucgucGGCAGcGCCg -3'
miRNA:   3'- uaCgCCAUAGCG----UCCUGA------CUGUC-CGG- -5'
20553 5' -56.1 NC_004688.1 + 16682 0.69 0.63431
Target:  5'- cUGCGGUAggGuUGGGGCaucgcGGCGGGCCa -3'
miRNA:   3'- uACGCCAUagC-GUCCUGa----CUGUCCGG- -5'
20553 5' -56.1 NC_004688.1 + 33564 0.69 0.63431
Target:  5'- cAUGUGGUggCGUugaacuucccGGGCUGACcGGCCu -3'
miRNA:   3'- -UACGCCAuaGCGu---------CCUGACUGuCCGG- -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.