miRNA display CGI


Results 1 - 20 of 28 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
26706 3' -53.1 NC_005808.1 + 632 0.67 0.743222
Target:  5'- aGCCuCGGcGCGGGUgAACGGgucagGCgGGGg -3'
miRNA:   3'- -CGG-GCCaCGUCUAgUUGCUa----UGgCUC- -5'
26706 3' -53.1 NC_005808.1 + 3741 0.66 0.774825
Target:  5'- -gCCGGUGguGggCAcguCGGUGCCGc- -3'
miRNA:   3'- cgGGCCACguCuaGUu--GCUAUGGCuc -5'
26706 3' -53.1 NC_005808.1 + 10941 0.68 0.665906
Target:  5'- gGCCuCGG-GCAGuugcgCGGCGAcaGCCGGGg -3'
miRNA:   3'- -CGG-GCCaCGUCua---GUUGCUa-UGGCUC- -5'
26706 3' -53.1 NC_005808.1 + 11428 0.7 0.542417
Target:  5'- aGCCgGcGUGCAGGUCGccgauaaggcGCGAcACCGGc -3'
miRNA:   3'- -CGGgC-CACGUCUAGU----------UGCUaUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 11702 0.71 0.478017
Target:  5'- aUCCGGUGCAGuGUCGGCugggauAUGCCGAc -3'
miRNA:   3'- cGGGCCACGUC-UAGUUGc-----UAUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 13467 0.68 0.664781
Target:  5'- gGCgCGGUGuCGGGcaugaccUgGGCGAUGCCGAc -3'
miRNA:   3'- -CGgGCCAC-GUCU-------AgUUGCUAUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 15387 0.72 0.408005
Target:  5'- cGUCCGcGUGCGGGcCGGCGAagaUGCCGGa -3'
miRNA:   3'- -CGGGC-CACGUCUaGUUGCU---AUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 16789 1.1 0.00112
Target:  5'- gGCCCGGUGCAGAUCAACGAUACCGAGc -3'
miRNA:   3'- -CGGGCCACGUCUAGUUGCUAUGGCUC- -5'
26706 3' -53.1 NC_005808.1 + 18944 0.66 0.795137
Target:  5'- cGCCUGGUGCAGuugCugcCGccGCCGGc -3'
miRNA:   3'- -CGGGCCACGUCua-Guu-GCuaUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 19037 0.67 0.736762
Target:  5'- aGCCCuGGUaGCGgccgccggcggcgucGAUCAGCGuguccucGCCGAGg -3'
miRNA:   3'- -CGGG-CCA-CGU---------------CUAGUUGCua-----UGGCUC- -5'
26706 3' -53.1 NC_005808.1 + 22322 0.67 0.732433
Target:  5'- -aCUGGUGCGGG-CAACGAcgGCCa-- -3'
miRNA:   3'- cgGGCCACGUCUaGUUGCUa-UGGcuc -5'
26706 3' -53.1 NC_005808.1 + 23160 0.66 0.750704
Target:  5'- aGCCCGagaagucccgcaccGUGCAGGUCAaggacagcaugGgGAUGCUGGa -3'
miRNA:   3'- -CGGGC--------------CACGUCUAGU-----------UgCUAUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 23953 0.68 0.677147
Target:  5'- cGCCCGGcG-AGGUCGGCauuUGCCGAu -3'
miRNA:   3'- -CGGGCCaCgUCUAGUUGcu-AUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 24547 0.71 0.467643
Target:  5'- cGCgUGGUcgcGCAGcgCGGCGAUGgCGAGg -3'
miRNA:   3'- -CGgGCCA---CGUCuaGUUGCUAUgGCUC- -5'
26706 3' -53.1 NC_005808.1 + 27800 0.68 0.643337
Target:  5'- cGCCgaGGUGCAGGUuucCAGCGAcAUCGuGa -3'
miRNA:   3'- -CGGg-CCACGUCUA---GUUGCUaUGGCuC- -5'
26706 3' -53.1 NC_005808.1 + 29964 0.73 0.380024
Target:  5'- cGCCaaaGGacgGCAG--CAGCGAUGCCGAGc -3'
miRNA:   3'- -CGGg--CCa--CGUCuaGUUGCUAUGGCUC- -5'
26706 3' -53.1 NC_005808.1 + 31100 0.68 0.63203
Target:  5'- cCUCGGUGCAGGcCGGCGAguggugCGAGa -3'
miRNA:   3'- cGGGCCACGUCUaGUUGCUaug---GCUC- -5'
26706 3' -53.1 NC_005808.1 + 31575 0.71 0.499097
Target:  5'- gGCCCGGUGCAGcagguguUCAuCGAcGCCa-- -3'
miRNA:   3'- -CGGGCCACGUCu------AGUuGCUaUGGcuc -5'
26706 3' -53.1 NC_005808.1 + 32521 0.72 0.437241
Target:  5'- cGCCC-GUGCAGGcUggUGAUGCCGGc -3'
miRNA:   3'- -CGGGcCACGUCUaGuuGCUAUGGCUc -5'
26706 3' -53.1 NC_005808.1 + 32741 0.67 0.699481
Target:  5'- cGCgCCGGUGCcacgcucAUCGACGccgaaACCGAGg -3'
miRNA:   3'- -CG-GGCCACGuc-----UAGUUGCua---UGGCUC- -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.