miRNA display CGI


Results 1 - 20 of 66 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
26609 3' -55.3 NC_005357.1 + 1753 0.74 0.243762
Target:  5'- gGGCGgucauggcCGGCCUgcgccUGGCGCGucgGGCCGAu -3'
miRNA:   3'- -CCGUa-------GCUGGA-----ACUGCGCua-CCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 5458 0.67 0.586009
Target:  5'- cGGUAUCGACCaucacGcCGCGGucguugauggucUGGUCGAg -3'
miRNA:   3'- -CCGUAGCUGGaa---CuGCGCU------------ACCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 5625 0.83 0.065198
Target:  5'- cGGCGUCGAUgUUGGCGaGGUGGCCGu -3'
miRNA:   3'- -CCGUAGCUGgAACUGCgCUACCGGCu -5'
26609 3' -55.3 NC_005357.1 + 6740 0.75 0.218711
Target:  5'- cGGCGUCGGCCUUGGCGCcccacuuuuccuuGGcgaccugcucgaUGGCCu- -3'
miRNA:   3'- -CCGUAGCUGGAACUGCG-------------CU------------ACCGGcu -5'
26609 3' -55.3 NC_005357.1 + 6954 0.68 0.542238
Target:  5'- gGGUAUUGACgCUUGACccgcuCGGUGGCUu- -3'
miRNA:   3'- -CCGUAGCUG-GAACUGc----GCUACCGGcu -5'
26609 3' -55.3 NC_005357.1 + 7234 0.7 0.400486
Target:  5'- uGCAacuUCGGCCacUGGCGCG--GGCCGAu -3'
miRNA:   3'- cCGU---AGCUGGa-ACUGCGCuaCCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 7324 0.7 0.438668
Target:  5'- uGC-UCGACCUUgaGACGC-AUGGCCu- -3'
miRNA:   3'- cCGuAGCUGGAA--CUGCGcUACCGGcu -5'
26609 3' -55.3 NC_005357.1 + 7448 0.78 0.137595
Target:  5'- cGGCuUCGGCCUUcGCGCGAaUGGCCu- -3'
miRNA:   3'- -CCGuAGCUGGAAcUGCGCU-ACCGGcu -5'
26609 3' -55.3 NC_005357.1 + 7684 0.69 0.458523
Target:  5'- aGGuCGUCGGgCUUGACcuCGgcGGCCGGc -3'
miRNA:   3'- -CC-GUAGCUgGAACUGc-GCuaCCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 8002 0.67 0.564011
Target:  5'- cGGCGUCGGacgugcCCUUGGCGCcagcuucGCCGGu -3'
miRNA:   3'- -CCGUAGCU------GGAACUGCGcuac---CGGCU- -5'
26609 3' -55.3 NC_005357.1 + 8460 0.67 0.597071
Target:  5'- cGGCGUCGAgg-UGGCcuGCGAUGccgcaGCCGAc -3'
miRNA:   3'- -CCGUAGCUggaACUG--CGCUAC-----CGGCU- -5'
26609 3' -55.3 NC_005357.1 + 8828 0.67 0.608164
Target:  5'- uGGUGUCGGCCUUGAuacCGUccucGCCGAc -3'
miRNA:   3'- -CCGUAGCUGGAACU---GCGcuacCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 9818 0.76 0.181529
Target:  5'- cGGCGUCGcggcCCUUGACGCG--GGCCa- -3'
miRNA:   3'- -CCGUAGCu---GGAACUGCGCuaCCGGcu -5'
26609 3' -55.3 NC_005357.1 + 12008 0.68 0.510132
Target:  5'- -aCGUCGGCCagcaGCGCGGccgUGGCCGGc -3'
miRNA:   3'- ccGUAGCUGGaac-UGCGCU---ACCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 12631 0.66 0.64153
Target:  5'- cGGCAUCGAgCgcgaGACaGCGuauGCCGAa -3'
miRNA:   3'- -CCGUAGCUgGaa--CUG-CGCuacCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 12857 0.69 0.448535
Target:  5'- gGGCG-CGGCCgaccUGACGCGAUaccCCGAg -3'
miRNA:   3'- -CCGUaGCUGGa---ACUGCGCUAcc-GGCU- -5'
26609 3' -55.3 NC_005357.1 + 12943 0.66 0.630403
Target:  5'- uGGaCA-CGACC--GACGCGGaacUGGCCGc -3'
miRNA:   3'- -CC-GUaGCUGGaaCUGCGCU---ACCGGCu -5'
26609 3' -55.3 NC_005357.1 + 13168 0.71 0.347352
Target:  5'- cGGCcaguGUCGGCCgcgcugGGCGCccuUGGCCGGc -3'
miRNA:   3'- -CCG----UAGCUGGaa----CUGCGcu-ACCGGCU- -5'
26609 3' -55.3 NC_005357.1 + 13399 0.71 0.382207
Target:  5'- gGGUAUCGACCUggccgaaGCGCGGcgccUGGUCGc -3'
miRNA:   3'- -CCGUAGCUGGAac-----UGCGCU----ACCGGCu -5'
26609 3' -55.3 NC_005357.1 + 13439 0.67 0.62039
Target:  5'- cGGCAggcccgccagcuuggCGGCCUcgGGCGCGGUG-UCGGg -3'
miRNA:   3'- -CCGUa--------------GCUGGAa-CUGCGCUACcGGCU- -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.