miRNA display CGI


Results 1 - 18 of 18 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
7177 3' -57.4 NC_001900.1 + 35341 0.66 0.5678
Target:  5'- gGAUCCGCuucgUGGucGCACaUCGCGgCGUCGAc -3'
miRNA:   3'- -CUAGGUG----ACC--CGUG-AGUGCaGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 47335 0.66 0.5678
Target:  5'- --cCCACUGGGCAgaccgaugcugUUCGCGaUGCCu- -3'
miRNA:   3'- cuaGGUGACCCGU-----------GAGUGCaGCGGcu -5'
7177 3' -57.4 NC_001900.1 + 36720 0.66 0.564564
Target:  5'- cGAUCUugUgGGGCGCgauggucugcgaagUCAUGUUGCCc- -3'
miRNA:   3'- -CUAGGugA-CCCGUG--------------AGUGCAGCGGcu -5'
7177 3' -57.4 NC_001900.1 + 17606 0.66 0.546328
Target:  5'- cGUCCucgggacuCUGGGCACUCAgcUCGCucCGAu -3'
miRNA:   3'- cUAGGu-------GACCCGUGAGUgcAGCG--GCU- -5'
7177 3' -57.4 NC_001900.1 + 22945 0.67 0.525122
Target:  5'- gGAUCUACccguguUGGGCGa-CACcccgGUCGCCGAg -3'
miRNA:   3'- -CUAGGUG------ACCCGUgaGUG----CAGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 35426 0.67 0.504236
Target:  5'- --cCCGCUGaacgucgcuGGCGCUCAUGUCGgCa- -3'
miRNA:   3'- cuaGGUGAC---------CCGUGAGUGCAGCgGcu -5'
7177 3' -57.4 NC_001900.1 + 5854 0.67 0.483718
Target:  5'- aGAUCCACgGGGCGCUguucaaCAcCGUCGUg-- -3'
miRNA:   3'- -CUAGGUGaCCCGUGA------GU-GCAGCGgcu -5'
7177 3' -57.4 NC_001900.1 + 15009 0.67 0.483718
Target:  5'- --gCUGCggucGGGUAUgugUACGUCGCCGAa -3'
miRNA:   3'- cuaGGUGa---CCCGUGa--GUGCAGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 37368 0.67 0.469596
Target:  5'- uGGUCCACcgagacGGGCucggguaguccaUCAgGUCGCCGAu -3'
miRNA:   3'- -CUAGGUGa-----CCCGug----------AGUgCAGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 10510 0.68 0.463609
Target:  5'- --cCUGCUGGGCACgaugguCGaCGCCGAc -3'
miRNA:   3'- cuaGGUGACCCGUGagu---GCaGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 46252 0.68 0.42476
Target:  5'- cGAUgaGCggaUGGGUcucgcccauguaGCUCAUGUCGCCGAg -3'
miRNA:   3'- -CUAggUG---ACCCG------------UGAGUGCAGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 40357 0.68 0.42476
Target:  5'- cGUCCACgaacucgcgGGGCACUU-CGcCGCCGu -3'
miRNA:   3'- cUAGGUGa--------CCCGUGAGuGCaGCGGCu -5'
7177 3' -57.4 NC_001900.1 + 41247 0.69 0.387921
Target:  5'- uGAUCCACgcugcgGGGCGCg-GC-UUGCCGAu -3'
miRNA:   3'- -CUAGGUGa-----CCCGUGagUGcAGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 19657 0.69 0.370305
Target:  5'- --gCCAacugGGGCGCUCGCGagaUCGCuCGAc -3'
miRNA:   3'- cuaGGUga--CCCGUGAGUGC---AGCG-GCU- -5'
7177 3' -57.4 NC_001900.1 + 23312 0.71 0.305461
Target:  5'- -cUCCGCgugcgccgGGGCGCggccCGCGUCGgCGAg -3'
miRNA:   3'- cuAGGUGa-------CCCGUGa---GUGCAGCgGCU- -5'
7177 3' -57.4 NC_001900.1 + 9479 0.72 0.249687
Target:  5'- --cCCGCUGGGCuacaccgacGCUUACGUCcacgGCCGGu -3'
miRNA:   3'- cuaGGUGACCCG---------UGAGUGCAG----CGGCU- -5'
7177 3' -57.4 NC_001900.1 + 8310 0.74 0.18702
Target:  5'- uGGUUCACgGcGGCGCUCGCGgCGCUGAc -3'
miRNA:   3'- -CUAGGUGaC-CCGUGAGUGCaGCGGCU- -5'
7177 3' -57.4 NC_001900.1 + 36789 1.08 0.000588
Target:  5'- cGAUCCACUGGGCACUCACGUCGCCGAc -3'
miRNA:   3'- -CUAGGUGACCCGUGAGUGCAGCGGCU- -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.