miRNA display CGI


Results 1 - 20 of 102 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
12984 3' -63.2 NC_003387.1 + 126 0.66 0.327745
Target:  5'- gGCGuguUUGCUgaGCUcGCuCGCCG-GGCGGUu -3'
miRNA:   3'- -CGCu--AGCGG--CGA-CG-GCGGCuCCGCCA- -5'
12984 3' -63.2 NC_003387.1 + 132 0.71 0.136595
Target:  5'- uGCGGUCGCCcucGCgauccgcGCCGCCGAGcUGGg -3'
miRNA:   3'- -CGCUAGCGG---CGa------CGGCGGCUCcGCCa -5'
12984 3' -63.2 NC_003387.1 + 440 0.69 0.201438
Target:  5'- gGCGGUuaagucugucgcCGCCGCgGCgGCCGAcGGCGa- -3'
miRNA:   3'- -CGCUA------------GCGGCGaCGgCGGCU-CCGCca -5'
12984 3' -63.2 NC_003387.1 + 966 0.67 0.277818
Target:  5'- gGCGGguagUUGUguaUGCcGCCGCCGAGGCGc- -3'
miRNA:   3'- -CGCU----AGCG---GCGaCGGCGGCUCCGCca -5'
12984 3' -63.2 NC_003387.1 + 1417 0.67 0.271202
Target:  5'- uGCGAggCGCCGCcGCCGaCGAgcuGGCaGGg -3'
miRNA:   3'- -CGCUa-GCGGCGaCGGCgGCU---CCG-CCa -5'
12984 3' -63.2 NC_003387.1 + 2042 0.71 0.147808
Target:  5'- cGCcGUCGCCGagcugGCCGCgGuGGCGGc -3'
miRNA:   3'- -CGcUAGCGGCga---CGGCGgCuCCGCCa -5'
12984 3' -63.2 NC_003387.1 + 2116 0.67 0.264713
Target:  5'- cGUGAUCGCCGaCgccccaGCgGCCGAcGUGGa -3'
miRNA:   3'- -CGCUAGCGGC-Ga-----CGgCGGCUcCGCCa -5'
12984 3' -63.2 NC_003387.1 + 2171 0.67 0.298438
Target:  5'- cGCGAgcagcUCGgCGCcuugGUCGCCGAcauguGGCGGc -3'
miRNA:   3'- -CGCU-----AGCgGCGa---CGGCGGCU-----CCGCCa -5'
12984 3' -63.2 NC_003387.1 + 2298 0.66 0.343178
Target:  5'- gGCGuaCGCCGaggcgacgauCUGCCGCCcGAcguacagcucGGCGGUg -3'
miRNA:   3'- -CGCuaGCGGC----------GACGGCGG-CU----------CCGCCA- -5'
12984 3' -63.2 NC_003387.1 + 2379 0.67 0.291436
Target:  5'- cGCGGUCa-CGUUGCCGC--GGGCGGc -3'
miRNA:   3'- -CGCUAGcgGCGACGGCGgcUCCGCCa -5'
12984 3' -63.2 NC_003387.1 + 2547 0.66 0.346327
Target:  5'- cGCGGUCGCCGCggcagauccucgccgUGUaCGCCGAcccGuCGGUc -3'
miRNA:   3'- -CGCUAGCGGCG---------------ACG-GCGGCUc--C-GCCA- -5'
12984 3' -63.2 NC_003387.1 + 4403 0.71 0.14398
Target:  5'- cGCGcUCGCgCGCcGCCucgauuucGUCGAGGCGGg -3'
miRNA:   3'- -CGCuAGCG-GCGaCGG--------CGGCUCCGCCa -5'
12984 3' -63.2 NC_003387.1 + 4513 0.72 0.133035
Target:  5'- uGCGGgucaccUCgGCCGCcGCCGCCGGuGCGGg -3'
miRNA:   3'- -CGCU------AG-CGGCGaCGGCGGCUcCGCCa -5'
12984 3' -63.2 NC_003387.1 + 4748 0.7 0.172775
Target:  5'- cCGuUUGCCGUUGCCGCCcAGcucGCGGUg -3'
miRNA:   3'- cGCuAGCGGCGACGGCGGcUC---CGCCA- -5'
12984 3' -63.2 NC_003387.1 + 8997 0.7 0.168367
Target:  5'- cGCGGgcUC-CCGCaUGCCGCCGucgagcaccuGGCGGg -3'
miRNA:   3'- -CGCU--AGcGGCG-ACGGCGGCu---------CCGCCa -5'
12984 3' -63.2 NC_003387.1 + 9523 0.67 0.291436
Target:  5'- cCGAUCGCCGCguacccgGCCaGCCGuuGCa-- -3'
miRNA:   3'- cGCUAGCGGCGa------CGG-CGGCucCGcca -5'
12984 3' -63.2 NC_003387.1 + 9537 0.74 0.096524
Target:  5'- aGCGGU-GCCuGCgcaagccGCCGCCGGGGUGGa -3'
miRNA:   3'- -CGCUAgCGG-CGa------CGGCGGCUCCGCCa -5'
12984 3' -63.2 NC_003387.1 + 9889 0.71 0.156149
Target:  5'- uCGAUCGCCGCcaugaucgccucgccGCCGUCGGGGCu-- -3'
miRNA:   3'- cGCUAGCGGCGa--------------CGGCGGCUCCGcca -5'
12984 3' -63.2 NC_003387.1 + 10667 0.67 0.277818
Target:  5'- uCGA-CGCgGCUgcgaccacgGCCGCCucGGCGGUg -3'
miRNA:   3'- cGCUaGCGgCGA---------CGGCGGcuCCGCCA- -5'
12984 3' -63.2 NC_003387.1 + 11390 0.67 0.298438
Target:  5'- gGCGAUCggcgccacgcugGCCGCgaucgGCC-CCGAGGUGc- -3'
miRNA:   3'- -CGCUAG------------CGGCGa----CGGcGGCUCCGCca -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.