miRNA display CGI


Results 1 - 20 of 34 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
23276 3' -53.4 NC_005259.1 + 17830 0.66 0.881053
Target:  5'- aGGCCAuCGACG-GGUGggcCGAGGCCaccccgUGGUc -3'
miRNA:   3'- -CUGGU-GCUGCaCUAU---GCUCUGG------ACCG- -5'
23276 3' -53.4 NC_005259.1 + 19217 0.66 0.879548
Target:  5'- gGGCgGCGACGUGGgacaccgagucgGCGAuGAUCgaUGGCc -3'
miRNA:   3'- -CUGgUGCUGCACUa-----------UGCU-CUGG--ACCG- -5'
23276 3' -53.4 NC_005259.1 + 13782 0.66 0.873431
Target:  5'- cGACgGCGACGagcagUGGUGCGAcaucACC-GGCg -3'
miRNA:   3'- -CUGgUGCUGC-----ACUAUGCUc---UGGaCCG- -5'
23276 3' -53.4 NC_005259.1 + 49051 0.66 0.873431
Target:  5'- gGACgAUGACGUGAU-CGGcGgUUGGCg -3'
miRNA:   3'- -CUGgUGCUGCACUAuGCUcUgGACCG- -5'
23276 3' -53.4 NC_005259.1 + 18144 0.66 0.872655
Target:  5'- aGGCCAUgGACGaGAUcgggcugACGccGGAUCUGGCa -3'
miRNA:   3'- -CUGGUG-CUGCaCUA-------UGC--UCUGGACCG- -5'
23276 3' -53.4 NC_005259.1 + 65997 0.66 0.865564
Target:  5'- aGCCGCucGACGUGGUGCGc-ACCcucggGGCc -3'
miRNA:   3'- cUGGUG--CUGCACUAUGCucUGGa----CCG- -5'
23276 3' -53.4 NC_005259.1 + 4121 0.66 0.857459
Target:  5'- cGGCCuCGACGUGGcca-AGACCgucGGCg -3'
miRNA:   3'- -CUGGuGCUGCACUaugcUCUGGa--CCG- -5'
23276 3' -53.4 NC_005259.1 + 16670 0.66 0.857459
Target:  5'- uGACCGCcucGAUGUGGUcgGCGAu-CCUGGg -3'
miRNA:   3'- -CUGGUG---CUGCACUA--UGCUcuGGACCg -5'
23276 3' -53.4 NC_005259.1 + 51521 0.67 0.849124
Target:  5'- cGACgCGCGugaccuCGUGc-ACGGGGCCgGGCa -3'
miRNA:   3'- -CUG-GUGCu-----GCACuaUGCUCUGGaCCG- -5'
23276 3' -53.4 NC_005259.1 + 29093 0.67 0.849124
Target:  5'- aGGCCGgGugGUGAgcugaUGCG-GACCcugcUGGUg -3'
miRNA:   3'- -CUGGUgCugCACU-----AUGCuCUGG----ACCG- -5'
23276 3' -53.4 NC_005259.1 + 13819 0.67 0.849124
Target:  5'- cACCACGuguGCGUGAUgaccgACGGGcacauuGCCcGGCg -3'
miRNA:   3'- cUGGUGC---UGCACUA-----UGCUC------UGGaCCG- -5'
23276 3' -53.4 NC_005259.1 + 58578 0.67 0.835326
Target:  5'- gGAUCGCGGCGcggcugccgggccgGAUcuuuuCGAGcGCCUGGCu -3'
miRNA:   3'- -CUGGUGCUGCa-------------CUAu----GCUC-UGGACCG- -5'
23276 3' -53.4 NC_005259.1 + 22393 0.67 0.810849
Target:  5'- cGGCCucgGCGACGUGAucgagaaagucguuUACGAGAaagacauucUCUGGg -3'
miRNA:   3'- -CUGG---UGCUGCACU--------------AUGCUCU---------GGACCg -5'
23276 3' -53.4 NC_005259.1 + 13437 0.67 0.804277
Target:  5'- gGGCCGCGcuagGCGUGAccgucgGCGcGGCgCUGGUg -3'
miRNA:   3'- -CUGGUGC----UGCACUa-----UGCuCUG-GACCG- -5'
23276 3' -53.4 NC_005259.1 + 64912 0.68 0.794739
Target:  5'- cGACgGCGAgCGUGAggaugACGAGugCcagcgcgagggUGGCc -3'
miRNA:   3'- -CUGgUGCU-GCACUa----UGCUCugG-----------ACCG- -5'
23276 3' -53.4 NC_005259.1 + 7168 0.68 0.785035
Target:  5'- gGACCACGAgGgcaccgGCGAGuGCCcGGCc -3'
miRNA:   3'- -CUGGUGCUgCacua--UGCUC-UGGaCCG- -5'
23276 3' -53.4 NC_005259.1 + 26612 0.68 0.785035
Target:  5'- cGCCGCGcCGgaccgguagccGAUAuCGAuGGCCUGGCg -3'
miRNA:   3'- cUGGUGCuGCa----------CUAU-GCU-CUGGACCG- -5'
23276 3' -53.4 NC_005259.1 + 57858 0.68 0.774181
Target:  5'- aACCACGACG--GUGCGAcacccucGAUgUGGCg -3'
miRNA:   3'- cUGGUGCUGCacUAUGCU-------CUGgACCG- -5'
23276 3' -53.4 NC_005259.1 + 39350 0.68 0.76517
Target:  5'- cGACCACGACGUGc--CG-GGCCUcGUc -3'
miRNA:   3'- -CUGGUGCUGCACuauGCuCUGGAcCG- -5'
23276 3' -53.4 NC_005259.1 + 54138 0.68 0.76517
Target:  5'- uGACCA-GACGguuu-CGAGGCCcGGCg -3'
miRNA:   3'- -CUGGUgCUGCacuauGCUCUGGaCCG- -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.