miRNA display CGI


Results 1 - 20 of 30 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
27453 3' -61.2 NC_005869.1 + 15634 0.66 0.290462
Target:  5'- uGCGCCGCcGCCGGGugcuccgccuCCGGCgc-GCCAc -3'
miRNA:   3'- -UGCGGUGaUGGCCC----------GGUUGaccCGGU- -5'
27453 3' -61.2 NC_005869.1 + 24911 0.66 0.283216
Target:  5'- aGCGCCAggGCCGGGUaggcgAAgUGGGUg- -3'
miRNA:   3'- -UGCGGUgaUGGCCCGg----UUgACCCGgu -5'
27453 3' -61.2 NC_005869.1 + 16224 0.66 0.276114
Target:  5'- cCGCCGCUgccGCCGGGCUcuCUu-GCCAu -3'
miRNA:   3'- uGCGGUGA---UGGCCCGGuuGAccCGGU- -5'
27453 3' -61.2 NC_005869.1 + 28545 0.66 0.274012
Target:  5'- cCGCCAUgguccGCCuGGCCAACUGGauaguggaucagauGCCc -3'
miRNA:   3'- uGCGGUGa----UGGcCCGGUUGACC--------------CGGu -5'
27453 3' -61.2 NC_005869.1 + 16619 0.66 0.255663
Target:  5'- cGCGCCG--GgCGGGCCGGCcccaGGCCGu -3'
miRNA:   3'- -UGCGGUgaUgGCCCGGUUGac--CCGGU- -5'
27453 3' -61.2 NC_005869.1 + 10134 0.66 0.255663
Target:  5'- aGCcCCACUACCagguGGUCAACUGGuCCGu -3'
miRNA:   3'- -UGcGGUGAUGGc---CCGGUUGACCcGGU- -5'
27453 3' -61.2 NC_005869.1 + 26827 0.66 0.255663
Target:  5'- cCGCCGCUGCUGcGGCCuucCUGGagaucGCUg -3'
miRNA:   3'- uGCGGUGAUGGC-CCGGuu-GACC-----CGGu -5'
27453 3' -61.2 NC_005869.1 + 22048 0.67 0.224357
Target:  5'- cCGCCAC-ACCGgaGGCCGccACUGgcuGGCCGu -3'
miRNA:   3'- uGCGGUGaUGGC--CCGGU--UGAC---CCGGU- -5'
27453 3' -61.2 NC_005869.1 + 33562 0.67 0.2185
Target:  5'- -aGUCAgcACCGcGGCCAGCagcagucggucgUGGGCCAu -3'
miRNA:   3'- ugCGGUgaUGGC-CCGGUUG------------ACCCGGU- -5'
27453 3' -61.2 NC_005869.1 + 3504 0.68 0.207179
Target:  5'- -gGCCACUcccugacgcacGCCGGcCCAGCUGGGaagaCGa -3'
miRNA:   3'- ugCGGUGA-----------UGGCCcGGUUGACCCg---GU- -5'
27453 3' -61.2 NC_005869.1 + 8539 0.68 0.207179
Target:  5'- -gGCCGgUcucaGgCGGG-CAGCUGGGCCAg -3'
miRNA:   3'- ugCGGUgA----UgGCCCgGUUGACCCGGU- -5'
27453 3' -61.2 NC_005869.1 + 17118 0.68 0.20171
Target:  5'- gGCGaCCGCggugGCCGGGCCgGGCUccgugagcacGGGCa- -3'
miRNA:   3'- -UGC-GGUGa---UGGCCCGG-UUGA----------CCCGgu -5'
27453 3' -61.2 NC_005869.1 + 10623 0.68 0.20171
Target:  5'- -aGCCGCcgGCCGGcGCC--CUGGGCgCGg -3'
miRNA:   3'- ugCGGUGa-UGGCC-CGGuuGACCCG-GU- -5'
27453 3' -61.2 NC_005869.1 + 23058 0.68 0.191149
Target:  5'- -gGCUGCcGCCaGGuGCCccuGCUGGGCCGg -3'
miRNA:   3'- ugCGGUGaUGG-CC-CGGu--UGACCCGGU- -5'
27453 3' -61.2 NC_005869.1 + 21034 0.69 0.181076
Target:  5'- -aGCCGCaACUGGGCCGccuuccgcgGCUGGaGCUu -3'
miRNA:   3'- ugCGGUGaUGGCCCGGU---------UGACC-CGGu -5'
27453 3' -61.2 NC_005869.1 + 8573 0.69 0.176218
Target:  5'- cCGCCGCcGCCGaGGCCG-CgGaGGCCGg -3'
miRNA:   3'- uGCGGUGaUGGC-CCGGUuGaC-CCGGU- -5'
27453 3' -61.2 NC_005869.1 + 16688 0.69 0.171476
Target:  5'- gGCGCCACgacgGCCugGGGCCGGCccgcccggcgcGGaGCCAg -3'
miRNA:   3'- -UGCGGUGa---UGG--CCCGGUUGa----------CC-CGGU- -5'
27453 3' -61.2 NC_005869.1 + 15364 0.69 0.170076
Target:  5'- gGCGCCACccgccGCCGGcGCCGccaucgucgacgucGgaGGGCCGc -3'
miRNA:   3'- -UGCGGUGa----UGGCC-CGGU--------------UgaCCCGGU- -5'
27453 3' -61.2 NC_005869.1 + 26620 0.69 0.164126
Target:  5'- gGCGCCGCUACCGccacgacauccucucGGCCcuggaguACUGcGCCGg -3'
miRNA:   3'- -UGCGGUGAUGGC---------------CCGGu------UGACcCGGU- -5'
27453 3' -61.2 NC_005869.1 + 8963 0.69 0.162333
Target:  5'- cGCGCaugACUACCuGGGCCggUUGaGcGCCAc -3'
miRNA:   3'- -UGCGg--UGAUGG-CCCGGuuGAC-C-CGGU- -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.