miRNA display CGI


Results 1 - 20 of 26 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
3603 3' -53.3 NC_001650.1 + 24455 1.1 0.004598
Target:  5'- aCGCCCACCCUGUAGCACAGUAUGUACu -3'
miRNA:   3'- -GCGGGUGGGACAUCGUGUCAUACAUG- -5'
3603 3' -53.3 NC_001650.1 + 73012 0.72 0.749261
Target:  5'- aCGCCCcucuCCCUG-AGCACcaugGUGUGCa -3'
miRNA:   3'- -GCGGGu---GGGACaUCGUGuca-UACAUG- -5'
3603 3' -53.3 NC_001650.1 + 123256 0.72 0.796711
Target:  5'- -cUCCACCuCUGUGGCACGGUaaaaggggGUGUGg -3'
miRNA:   3'- gcGGGUGG-GACAUCGUGUCA--------UACAUg -5'
3603 3' -53.3 NC_001650.1 + 131666 0.71 0.805779
Target:  5'- gCGCCCccuCCCUGaggGGgGCGGUGgagGUGCu -3'
miRNA:   3'- -GCGGGu--GGGACa--UCgUGUCAUa--CAUG- -5'
3603 3' -53.3 NC_001650.1 + 52320 0.71 0.835346
Target:  5'- cCGgCgGCCCUGUAuacuggacuugauguGUACAGUGUGUAa -3'
miRNA:   3'- -GCgGgUGGGACAU---------------CGUGUCAUACAUg -5'
3603 3' -53.3 NC_001650.1 + 15370 0.7 0.848517
Target:  5'- gCGCCgCGCCC-GUGGCGCGGcgccauguUGUGUGu -3'
miRNA:   3'- -GCGG-GUGGGaCAUCGUGUC--------AUACAUg -5'
3603 3' -53.3 NC_001650.1 + 182077 0.7 0.848517
Target:  5'- gCGCCgCGCCC-GUGGCGCGGcgccauguUGUGUGu -3'
miRNA:   3'- -GCGG-GUGGGaCAUCGUGUC--------AUACAUg -5'
3603 3' -53.3 NC_001650.1 + 21811 0.7 0.848517
Target:  5'- gCGCCCACCCUGUgcccgGGCAacaccguccuCAGUAUc--- -3'
miRNA:   3'- -GCGGGUGGGACA-----UCGU----------GUCAUAcaug -5'
3603 3' -53.3 NC_001650.1 + 74927 0.7 0.856488
Target:  5'- gGCCCuGCCCaUGUGGUGCAGgGUGgucGCg -3'
miRNA:   3'- gCGGG-UGGG-ACAUCGUGUCaUACa--UG- -5'
3603 3' -53.3 NC_001650.1 + 27415 0.69 0.893088
Target:  5'- cCGCCC-CCCUGUGGC-CGGUc----- -3'
miRNA:   3'- -GCGGGuGGGACAUCGuGUCAuacaug -5'
3603 3' -53.3 NC_001650.1 + 164402 0.69 0.893088
Target:  5'- uCGCCCAgCCUGagagacaGGCGCGGggcGUGCu -3'
miRNA:   3'- -GCGGGUgGGACa------UCGUGUCauaCAUG- -5'
3603 3' -53.3 NC_001650.1 + 40333 0.69 0.906112
Target:  5'- aCGCCCA-UCUGUGGCgACGccGUGUGUGa -3'
miRNA:   3'- -GCGGGUgGGACAUCG-UGU--CAUACAUg -5'
3603 3' -53.3 NC_001650.1 + 107988 0.69 0.906112
Target:  5'- --aCCGCCCUGUGGUuCAgguugguuuGUAUGUACc -3'
miRNA:   3'- gcgGGUGGGACAUCGuGU---------CAUACAUG- -5'
3603 3' -53.3 NC_001650.1 + 158353 0.69 0.912263
Target:  5'- gCGCCC-CCCUcggcggccgggGUcAGCGCGGUGgcggGUACc -3'
miRNA:   3'- -GCGGGuGGGA-----------CA-UCGUGUCAUa---CAUG- -5'
3603 3' -53.3 NC_001650.1 + 72523 0.69 0.91817
Target:  5'- uCGUCCACCCUGUuguuGUACAGg------ -3'
miRNA:   3'- -GCGGGUGGGACAu---CGUGUCauacaug -5'
3603 3' -53.3 NC_001650.1 + 136685 0.68 0.929247
Target:  5'- uCGCCCGCUCUGUGGgC-CcGUAUGg-- -3'
miRNA:   3'- -GCGGGUGGGACAUC-GuGuCAUACaug -5'
3603 3' -53.3 NC_001650.1 + 157813 0.68 0.939339
Target:  5'- uGCCCAucuggguuCUCUGUugcccaggggcGGCGCGGUGcUGUACc -3'
miRNA:   3'- gCGGGU--------GGGACA-----------UCGUGUCAU-ACAUG- -5'
3603 3' -53.3 NC_001650.1 + 38969 0.67 0.948454
Target:  5'- uCGCCCACCCacGUugcGCGCGGgagAUGg-- -3'
miRNA:   3'- -GCGGGUGGGa-CAu--CGUGUCa--UACaug -5'
3603 3' -53.3 NC_001650.1 + 128333 0.67 0.952651
Target:  5'- aCGCUCucGCCCU-UGGUGCAGaugAUGUACg -3'
miRNA:   3'- -GCGGG--UGGGAcAUCGUGUCa--UACAUG- -5'
3603 3' -53.3 NC_001650.1 + 87673 0.67 0.960341
Target:  5'- aCGCCCACCCUGUaccuggaggAGCcCGagAUGUuCg -3'
miRNA:   3'- -GCGGGUGGGACA---------UCGuGUcaUACAuG- -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.