miRNA display CGI


Results 1 - 20 of 47 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
1355 3' -63.6 NC_001335.1 + 5863 0.66 0.31527
Target:  5'- aGGaucuGCgUGGCCAGCGGGCCGaGCUg -3'
miRNA:   3'- gCCguc-UG-GCCGGUCGUCUGGC-CGGu -5'
1355 3' -63.6 NC_001335.1 + 31800 0.66 0.307926
Target:  5'- gCGGCAagccCCGGUCAGCcaGCCGGUUg -3'
miRNA:   3'- -GCCGUcu--GGCCGGUCGucUGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 50205 0.66 0.307926
Target:  5'- gGGCAggagaagccuuGACCGGagGGCAGGCCGauGCUg -3'
miRNA:   3'- gCCGU-----------CUGGCCggUCGUCUGGC--CGGu -5'
1355 3' -63.6 NC_001335.1 + 17243 0.66 0.307926
Target:  5'- -uGCAGcACCGcGCCuGC-GACCuGGCCGa -3'
miRNA:   3'- gcCGUC-UGGC-CGGuCGuCUGG-CCGGU- -5'
1355 3' -63.6 NC_001335.1 + 14481 0.66 0.303583
Target:  5'- uCGGCuGGugUGGCCgacgcucguccaaccGGUAGcACCGGuCCAg -3'
miRNA:   3'- -GCCG-UCugGCCGG---------------UCGUC-UGGCC-GGU- -5'
1355 3' -63.6 NC_001335.1 + 22505 0.66 0.300713
Target:  5'- cCGaGCGuAUCGGCgAGCuGGCCGGCa- -3'
miRNA:   3'- -GC-CGUcUGGCCGgUCGuCUGGCCGgu -5'
1355 3' -63.6 NC_001335.1 + 46920 0.66 0.300713
Target:  5'- cCGGCGuACCGGCCAcGUcu-UCGGCCu -3'
miRNA:   3'- -GCCGUcUGGCCGGU-CGucuGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 41413 0.66 0.286681
Target:  5'- cCGGUgccgGGGCCGGC--GCAGACCaggacuagcuGGCCu -3'
miRNA:   3'- -GCCG----UCUGGCCGguCGUCUGG----------CCGGu -5'
1355 3' -63.6 NC_001335.1 + 26578 0.66 0.286681
Target:  5'- -cGCGGAUCaGCCGG-GGACCGaGCCGa -3'
miRNA:   3'- gcCGUCUGGcCGGUCgUCUGGC-CGGU- -5'
1355 3' -63.6 NC_001335.1 + 48381 0.66 0.286681
Target:  5'- uGGCccacgccaagGGugUGGuUCGGCcGGCCGGCCGc -3'
miRNA:   3'- gCCG----------UCugGCC-GGUCGuCUGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 9802 0.66 0.279861
Target:  5'- aCGGCAccGCCGaaGCCA-CAG-CCGGCCAu -3'
miRNA:   3'- -GCCGUc-UGGC--CGGUcGUCuGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 17596 0.66 0.279861
Target:  5'- uCGGCGGGauGGUCAGCGcAgCGGUCAa -3'
miRNA:   3'- -GCCGUCUggCCGGUCGUcUgGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 27156 0.66 0.27317
Target:  5'- aGGCGGACaGGCUcaGGguGGCggcaaGGCCGa -3'
miRNA:   3'- gCCGUCUGgCCGG--UCguCUGg----CCGGU- -5'
1355 3' -63.6 NC_001335.1 + 1833 0.67 0.262732
Target:  5'- aCGGCgugGGGCUgugGGCCAGCcugucgaagaucgagGGGCUGGUCGa -3'
miRNA:   3'- -GCCG---UCUGG---CCGGUCG---------------UCUGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 24928 0.67 0.260174
Target:  5'- aGGCAuGCCGGCgGGCAGuCgGGgCu -3'
miRNA:   3'- gCCGUcUGGCCGgUCGUCuGgCCgGu -5'
1355 3' -63.6 NC_001335.1 + 21242 0.67 0.258903
Target:  5'- uGGCGGAUUGGUCAGagcacuuguggaAGugCGGCUu -3'
miRNA:   3'- gCCGUCUGGCCGGUCg-----------UCugGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 43481 0.67 0.247687
Target:  5'- uGGCGGAaggacaagGGCCAGCAGAuCUGGaCUAc -3'
miRNA:   3'- gCCGUCUgg------CCGGUCGUCU-GGCC-GGU- -5'
1355 3' -63.6 NC_001335.1 + 28944 0.67 0.247076
Target:  5'- cCGGCAGccGCCGGCCcaucGCGuuGACgauguagccguugCGGCCAg -3'
miRNA:   3'- -GCCGUC--UGGCCGGu---CGU--CUG-------------GCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 48813 0.67 0.241631
Target:  5'- gCGGC-GACCGGaCgCGGUAGcuucuCCGGUCAg -3'
miRNA:   3'- -GCCGuCUGGCC-G-GUCGUCu----GGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 48293 0.67 0.238058
Target:  5'- gCGGCcGGCCGGCCGaaccacacccuuggcGUGGGCCagcaggacguGGCCGc -3'
miRNA:   3'- -GCCGuCUGGCCGGU---------------CGUCUGG----------CCGGU- -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.