miRNA display CGI


Results 1 - 20 of 24 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
20440 3' -60.4 NC_004688.1 + 2472 0.66 0.653719
Target:  5'- -aCGG-GACUauucaauGGGGuGAGGCaCUCCACg -3'
miRNA:   3'- uaGCCgCUGA-------CCCC-UUCCG-GAGGUGg -5'
20440 3' -60.4 NC_004688.1 + 70086 0.66 0.648636
Target:  5'- -aCGGCGA-UGucGAAcucguacauccccguGGCCUCCACCg -3'
miRNA:   3'- uaGCCGCUgACccCUU---------------CCGGAGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 58922 0.66 0.644567
Target:  5'- gGUCccuGCG-CUGGGaGcuGGCgUCCACCa -3'
miRNA:   3'- -UAGc--CGCuGACCC-CuuCCGgAGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 82350 0.66 0.644567
Target:  5'- cUCGGCc-UUGGcGcGGGCCUUCACCg -3'
miRNA:   3'- uAGCCGcuGACCcCuUCCGGAGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 5116 0.66 0.62421
Target:  5'- -gCGGCGGgUGGuGAAGaCC-CCACCg -3'
miRNA:   3'- uaGCCGCUgACCcCUUCcGGaGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 72832 0.66 0.615053
Target:  5'- cUCGGCGGUUGcauuGGGAccagcagaucuucuuGGCCUCCGCg -3'
miRNA:   3'- uAGCCGCUGAC----CCCUu--------------CCGGAGGUGg -5'
20440 3' -60.4 NC_004688.1 + 10667 0.66 0.614036
Target:  5'- cAUgGGCG-CUGGGGgcGGUCagCGCg -3'
miRNA:   3'- -UAgCCGCuGACCCCuuCCGGagGUGg -5'
20440 3' -60.4 NC_004688.1 + 13908 0.66 0.600831
Target:  5'- cGUUGGCG-CUGccgcacagcguggcGGcGAAaGCCUCCGCCa -3'
miRNA:   3'- -UAGCCGCuGAC--------------CC-CUUcCGGAGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 29106 0.67 0.593736
Target:  5'- gAUCGGUGcGCuUGaGGGaAAGGUUUCCGCUc -3'
miRNA:   3'- -UAGCCGC-UG-AC-CCC-UUCCGGAGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 94597 0.67 0.593736
Target:  5'- --gGGUGACUGGGc---GCCcaUCCACCa -3'
miRNA:   3'- uagCCGCUGACCCcuucCGG--AGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 103116 0.67 0.583625
Target:  5'- -cCGGCuACUGGGGcggugagcAGGUCUaCCGCUa -3'
miRNA:   3'- uaGCCGcUGACCCCu-------UCCGGA-GGUGG- -5'
20440 3' -60.4 NC_004688.1 + 30836 0.67 0.573547
Target:  5'- cUCGGUGaACUccGGcGGGAGGCCgggugugCCAgCCg -3'
miRNA:   3'- uAGCCGC-UGA--CC-CCUUCCGGa------GGU-GG- -5'
20440 3' -60.4 NC_004688.1 + 23163 0.67 0.553523
Target:  5'- cUgGGCGGCcGGagagagggauuGGAGGGCCUCgGCg -3'
miRNA:   3'- uAgCCGCUGaCC-----------CCUUCCGGAGgUGg -5'
20440 3' -60.4 NC_004688.1 + 5313 0.67 0.552527
Target:  5'- -cCGaGCGACUcgaGGGugaguuuGAAGGCCUCCAg- -3'
miRNA:   3'- uaGC-CGCUGA---CCC-------CUUCCGGAGGUgg -5'
20440 3' -60.4 NC_004688.1 + 63751 0.68 0.530761
Target:  5'- cAUUGGgGGCggagaGGugaucgaucaccguGGAgcGGGCCUCCGCCa -3'
miRNA:   3'- -UAGCCgCUGa----CC--------------CCU--UCCGGAGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 609 0.68 0.514158
Target:  5'- -cCGGCGggaGCUGGcGGAGGuCCUCCAg- -3'
miRNA:   3'- uaGCCGC---UGACCcCUUCC-GGAGGUgg -5'
20440 3' -60.4 NC_004688.1 + 29706 0.68 0.494903
Target:  5'- gGUCGuugccCGGCUGGGGAucacccGGCCgCCACa -3'
miRNA:   3'- -UAGCc----GCUGACCCCUu-----CCGGaGGUGg -5'
20440 3' -60.4 NC_004688.1 + 74791 0.69 0.461109
Target:  5'- uGUCGGCGGgUGGGGguuuggacgccgAgcucguuccagucgaAGGUgUCCGCCa -3'
miRNA:   3'- -UAGCCGCUgACCCC------------U---------------UCCGgAGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 40940 0.7 0.404226
Target:  5'- gGUCGGgGACUGGagcGGGugacucGGCCgUCCACUc -3'
miRNA:   3'- -UAGCCgCUGACC---CCUu-----CCGG-AGGUGG- -5'
20440 3' -60.4 NC_004688.1 + 67594 0.7 0.38738
Target:  5'- cGUCGGCGGC-GGucGGcGGGCUgaggUCCACCu -3'
miRNA:   3'- -UAGCCGCUGaCC--CCuUCCGG----AGGUGG- -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.