miRNA display CGI


Results 1 - 20 of 33 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
26821 3' -51 NC_005809.1 + 38376 0.66 0.870224
Target:  5'- cGACGugcUCGCGGCCaacaugcccgcCAUCGAggcggccggcuaCCAGAUCg -3'
miRNA:   3'- -CUGU---AGCGUUGGa----------GUAGCU------------GGUCUAG- -5'
26821 3' -51 NC_005809.1 + 29794 0.66 0.86172
Target:  5'- cGGCAuacgcugucUCGCGcucgauGCCgaugaaUCGUCGACCAGAa- -3'
miRNA:   3'- -CUGU---------AGCGU------UGG------AGUAGCUGGUCUag -5'
26821 3' -51 NC_005809.1 + 9756 0.66 0.86172
Target:  5'- gGGCG-CGCuucGCCUCGaaGuCCAGAUCg -3'
miRNA:   3'- -CUGUaGCGu--UGGAGUagCuGGUCUAG- -5'
26821 3' -51 NC_005809.1 + 4891 0.66 0.86172
Target:  5'- cGACG--GCGGCCUCGuuuUCGGCCAcGGUg -3'
miRNA:   3'- -CUGUagCGUUGGAGU---AGCUGGU-CUAg -5'
26821 3' -51 NC_005809.1 + 1175 0.66 0.86172
Target:  5'- cACAuagucUCGCcGCCgggGUCGGCCGGGUUg -3'
miRNA:   3'- cUGU-----AGCGuUGGag-UAGCUGGUCUAG- -5'
26821 3' -51 NC_005809.1 + 14120 0.66 0.86172
Target:  5'- -uUAUCGCcguaCUCGUCGGCCAGc-- -3'
miRNA:   3'- cuGUAGCGuug-GAGUAGCUGGUCuag -5'
26821 3' -51 NC_005809.1 + 8561 0.66 0.852948
Target:  5'- gGGCAUCGacgugGACUaugcCGACCAGAUCg -3'
miRNA:   3'- -CUGUAGCg----UUGGaguaGCUGGUCUAG- -5'
26821 3' -51 NC_005809.1 + 11390 0.66 0.852948
Target:  5'- --gGUgGCGACCUgAUgGGCCAGgGUCu -3'
miRNA:   3'- cugUAgCGUUGGAgUAgCUGGUC-UAG- -5'
26821 3' -51 NC_005809.1 + 7545 0.66 0.852948
Target:  5'- cGCA-CGCuGgCUCG-CGGCCGGGUCg -3'
miRNA:   3'- cUGUaGCGuUgGAGUaGCUGGUCUAG- -5'
26821 3' -51 NC_005809.1 + 14819 0.66 0.843919
Target:  5'- cGGCggCGCuGCCU--UCGcCCAGGUCg -3'
miRNA:   3'- -CUGuaGCGuUGGAguAGCuGGUCUAG- -5'
26821 3' -51 NC_005809.1 + 805 0.67 0.828961
Target:  5'- cGGCGaCGCGccgcgcccagcccuuGCCgaaCGUCGGCCAGGUg -3'
miRNA:   3'- -CUGUaGCGU---------------UGGa--GUAGCUGGUCUAg -5'
26821 3' -51 NC_005809.1 + 39854 0.67 0.815387
Target:  5'- cGACGUUGCGcaggugcgcccACUUCGUCGauucgucggGCCAGGUg -3'
miRNA:   3'- -CUGUAGCGU-----------UGGAGUAGC---------UGGUCUAg -5'
26821 3' -51 NC_005809.1 + 36767 0.67 0.815387
Target:  5'- cGCAgagCGCGACguuCUCGUCGAUcaacgcccaccgCAGAUCg -3'
miRNA:   3'- cUGUa--GCGUUG---GAGUAGCUG------------GUCUAG- -5'
26821 3' -51 NC_005809.1 + 8348 0.67 0.795275
Target:  5'- ----cCGCGGCCUgGUCGAuagcgugcgUCAGAUCg -3'
miRNA:   3'- cuguaGCGUUGGAgUAGCU---------GGUCUAG- -5'
26821 3' -51 NC_005809.1 + 8671 0.67 0.782836
Target:  5'- cGGCAUUGCGugccgcgcgcACCUCGgcguugguguacUGGCCGGGUCg -3'
miRNA:   3'- -CUGUAGCGU----------UGGAGUa-----------GCUGGUCUAG- -5'
26821 3' -51 NC_005809.1 + 30185 0.68 0.740798
Target:  5'- cGGCGUguucuggCGCGGCCUCAUCGcCUGGGa- -3'
miRNA:   3'- -CUGUA-------GCGUUGGAGUAGCuGGUCUag -5'
26821 3' -51 NC_005809.1 + 27359 0.69 0.719595
Target:  5'- cGACcUCGCAGCaCUCGuccagccauUCGGCCAGcaaAUCc -3'
miRNA:   3'- -CUGuAGCGUUG-GAGU---------AGCUGGUC---UAG- -5'
26821 3' -51 NC_005809.1 + 34979 0.69 0.696901
Target:  5'- cGACAUUGCu-UCUCAcCGgggGCCAGGUCg -3'
miRNA:   3'- -CUGUAGCGuuGGAGUaGC---UGGUCUAG- -5'
26821 3' -51 NC_005809.1 + 18627 0.69 0.696901
Target:  5'- cGCGagCGCGGCCUCcacCGACguGAUCg -3'
miRNA:   3'- cUGUa-GCGUUGGAGua-GCUGguCUAG- -5'
26821 3' -51 NC_005809.1 + 16603 0.69 0.685442
Target:  5'- aGCAagGCGGCCUguacggcuaUAUCGGCCAGAc- -3'
miRNA:   3'- cUGUagCGUUGGA---------GUAGCUGGUCUag -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.