miRNA display CGI


Results 1 - 20 of 40 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
23148 3' -61.7 NC_005178.1 + 8897 0.66 0.285528
Target:  5'- aCAuCCAGaCCcugGGCCAGCaGGAUcgGCCc -3'
miRNA:   3'- aGU-GGUC-GGa--CCGGUCGcCCUA--CGGu -5'
23148 3' -61.7 NC_005178.1 + 36192 0.68 0.209301
Target:  5'- -gGCCAGUggcuggacggagCUGGUaGGCGGGAUGgCCGa -3'
miRNA:   3'- agUGGUCG------------GACCGgUCGCCCUAC-GGU- -5'
23148 3' -61.7 NC_005178.1 + 12107 0.67 0.220663
Target:  5'- -gGCgGGCCUGGCCGaUGGGcgcGCCGc -3'
miRNA:   3'- agUGgUCGGACCGGUcGCCCua-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 27467 0.67 0.238688
Target:  5'- gCAUCAGCCUGGaCCAGaa-GAUcGCCGa -3'
miRNA:   3'- aGUGGUCGGACC-GGUCgccCUA-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 13042 0.67 0.238688
Target:  5'- -gGCCAGCCUGGCC-----GAUGCCu -3'
miRNA:   3'- agUGGUCGGACCGGucgccCUACGGu -5'
23148 3' -61.7 NC_005178.1 + 2813 0.66 0.251377
Target:  5'- gUCGCCGauGCCc-GCCAG-GGGGUGCUg -3'
miRNA:   3'- -AGUGGU--CGGacCGGUCgCCCUACGGu -5'
23148 3' -61.7 NC_005178.1 + 5538 0.66 0.251377
Target:  5'- gUCGCCuGCCUGcGCC--UGGGcgGCUAc -3'
miRNA:   3'- -AGUGGuCGGAC-CGGucGCCCuaCGGU- -5'
23148 3' -61.7 NC_005178.1 + 35392 0.66 0.264616
Target:  5'- aCACCAGCgagggccaaCUGGCCccGGCGcuGGccGCCAc -3'
miRNA:   3'- aGUGGUCG---------GACCGG--UCGC--CCuaCGGU- -5'
23148 3' -61.7 NC_005178.1 + 13103 0.66 0.271446
Target:  5'- aCAUCAGCgCUGGCCAccGCuauGGaGGUGCUc -3'
miRNA:   3'- aGUGGUCG-GACCGGU--CG---CC-CUACGGu -5'
23148 3' -61.7 NC_005178.1 + 22266 0.68 0.203811
Target:  5'- cCGCCAGgCUGGCCcgccaggcGGCGGGcgaugaaGCCc -3'
miRNA:   3'- aGUGGUCgGACCGG--------UCGCCCua-----CGGu -5'
23148 3' -61.7 NC_005178.1 + 19902 0.68 0.198447
Target:  5'- -gAUguGCCgGGCUGGCGGaucGAUGCCGc -3'
miRNA:   3'- agUGguCGGaCCGGUCGCC---CUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 28259 0.68 0.198447
Target:  5'- cUCGCUGGCCgccgccaaUGGUguCAGUGGGGUGaCCGg -3'
miRNA:   3'- -AGUGGUCGG--------ACCG--GUCGCCCUAC-GGU- -5'
23148 3' -61.7 NC_005178.1 + 3446 0.77 0.041443
Target:  5'- cCACCGGCCUGGCCgagucggcccugguGGUGGucGAUGCCc -3'
miRNA:   3'- aGUGGUCGGACCGG--------------UCGCC--CUACGGu -5'
23148 3' -61.7 NC_005178.1 + 26808 0.72 0.091312
Target:  5'- --uCCAGCCgggacgcgcugUGGCCAGCGGGGcUGUCu -3'
miRNA:   3'- aguGGUCGG-----------ACCGGUCGCCCU-ACGGu -5'
23148 3' -61.7 NC_005178.1 + 6827 0.7 0.128107
Target:  5'- cCGCCucauuGCCUGG-CAGUgGGGGUGCUAa -3'
miRNA:   3'- aGUGGu----CGGACCgGUCG-CCCUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 25356 0.7 0.139253
Target:  5'- -uGCCAGCCaGGCUGGCcGGGA-GCUg -3'
miRNA:   3'- agUGGUCGGaCCGGUCG-CCCUaCGGu -5'
23148 3' -61.7 NC_005178.1 + 9530 0.7 0.143163
Target:  5'- gCGCC-GCCUGGC--GCGGGAacGCCAa -3'
miRNA:   3'- aGUGGuCGGACCGguCGCCCUa-CGGU- -5'
23148 3' -61.7 NC_005178.1 + 33903 0.69 0.16425
Target:  5'- -uGCCGcGCCUGGCggcgaugcuCGGCGGccGGUGCCGg -3'
miRNA:   3'- agUGGU-CGGACCG---------GUCGCC--CUACGGU- -5'
23148 3' -61.7 NC_005178.1 + 28359 0.69 0.16425
Target:  5'- aUCACCAGCauuuucGGCUucGCGGGuggcgGCCAg -3'
miRNA:   3'- -AGUGGUCGga----CCGGu-CGCCCua---CGGU- -5'
23148 3' -61.7 NC_005178.1 + 10039 0.68 0.183088
Target:  5'- aUCACCGcgcuCCUGGCCAGCGcccaucgccccuGGAgcuacGCCGa -3'
miRNA:   3'- -AGUGGUc---GGACCGGUCGC------------CCUa----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.