miRNA display CGI


Results 1 - 20 of 45 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
16002 3' -55.7 NC_004065.1 + 227890 0.67 0.950293
Target:  5'- gCGGAcGAGGAUCGcUCCGAGgAUAGc--- -3'
miRNA:   3'- -GCCU-CUCCUAGC-AGGCUC-UGUCcugu -5'
16002 3' -55.7 NC_004065.1 + 207499 0.66 0.973284
Target:  5'- cCGGAacGGGGAauaccgUUGUCCGGGugGGG-Cu -3'
miRNA:   3'- -GCCU--CUCCU------AGCAGGCUCugUCCuGu -5'
16002 3' -55.7 NC_004065.1 + 192530 0.68 0.932515
Target:  5'- -cGAGAuGGAgUCGUCgGAGACgaAGGACu -3'
miRNA:   3'- gcCUCU-CCU-AGCAGgCUCUG--UCCUGu -5'
16002 3' -55.7 NC_004065.1 + 187201 0.66 0.967711
Target:  5'- cCGGAGGGGGUUcccCCGAuGugAgGGGCAu -3'
miRNA:   3'- -GCCUCUCCUAGca-GGCU-CugU-CCUGU- -5'
16002 3' -55.7 NC_004065.1 + 181206 0.68 0.924412
Target:  5'- gGuGAGAGGAUgGUgCCGuucggccggcugcguGGACGGGACc -3'
miRNA:   3'- gC-CUCUCCUAgCA-GGC---------------UCUGUCCUGu -5'
16002 3' -55.7 NC_004065.1 + 176463 0.7 0.865507
Target:  5'- uCGGGGAGGGaUGUCgggcaGAGGCGGaGGCAc -3'
miRNA:   3'- -GCCUCUCCUaGCAGg----CUCUGUC-CUGU- -5'
16002 3' -55.7 NC_004065.1 + 176324 0.66 0.970592
Target:  5'- gGGGGAGGAgggCGgUCG-GGCGGcGACAc -3'
miRNA:   3'- gCCUCUCCUa--GCaGGCuCUGUC-CUGU- -5'
16002 3' -55.7 NC_004065.1 + 164777 0.66 0.967711
Target:  5'- aCGGAGGacGGGUUGgagauugUCGAGACGGG-CGc -3'
miRNA:   3'- -GCCUCU--CCUAGCa------GGCUCUGUCCuGU- -5'
16002 3' -55.7 NC_004065.1 + 148794 0.66 0.973284
Target:  5'- ---cGAGGAgUGUUCGGGuCGGGACAu -3'
miRNA:   3'- gccuCUCCUaGCAGGCUCuGUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 148384 0.68 0.916853
Target:  5'- gCGGAGGGGGggccgaauguUCGUcuucagccCCGAGA-AGGGCAa -3'
miRNA:   3'- -GCCUCUCCU----------AGCA--------GGCUCUgUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 145719 0.66 0.961361
Target:  5'- aGGAGAGG-UCGguggagGAGGCGGGAg- -3'
miRNA:   3'- gCCUCUCCuAGCagg---CUCUGUCCUgu -5'
16002 3' -55.7 NC_004065.1 + 143290 0.68 0.916853
Target:  5'- aGGGccGAGGcggcGUCGggggCCGGGGCAGGAgGg -3'
miRNA:   3'- gCCU--CUCC----UAGCa---GGCUCUGUCCUgU- -5'
16002 3' -55.7 NC_004065.1 + 142933 0.71 0.818706
Target:  5'- uCGGAGGcGAUCGUCCGccacGugGGGAUu -3'
miRNA:   3'- -GCCUCUcCUAGCAGGCu---CugUCCUGu -5'
16002 3' -55.7 NC_004065.1 + 139860 0.69 0.872656
Target:  5'- aCGGcGGAGGcggCGgagCCGGcGGCAGGACGg -3'
miRNA:   3'- -GCC-UCUCCua-GCa--GGCU-CUGUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 139481 0.66 0.973284
Target:  5'- -cGAGGGGGcCGUC--GGGCGGGACGa -3'
miRNA:   3'- gcCUCUCCUaGCAGgcUCUGUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 138256 0.72 0.738404
Target:  5'- uCGaGGAGGGUCGggugUCCGAGGC-GGACGu -3'
miRNA:   3'- -GCcUCUCCUAGC----AGGCUCUGuCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 136826 0.66 0.973284
Target:  5'- gGGAGGGGGggGUuuGGGGgGGGGu- -3'
miRNA:   3'- gCCUCUCCUagCAggCUCUgUCCUgu -5'
16002 3' -55.7 NC_004065.1 + 136234 0.7 0.850628
Target:  5'- gGGAGAGGAg---CCG-GACAGGAa- -3'
miRNA:   3'- gCCUCUCCUagcaGGCuCUGUCCUgu -5'
16002 3' -55.7 NC_004065.1 + 136199 0.66 0.961361
Target:  5'- uCGGGGAGGGaaG-CCG-GACAGGGa- -3'
miRNA:   3'- -GCCUCUCCUagCaGGCuCUGUCCUgu -5'
16002 3' -55.7 NC_004065.1 + 136167 0.66 0.961361
Target:  5'- uCGGGGAGGGaaG-CCG-GACAGGGa- -3'
miRNA:   3'- -GCCUCUCCUagCaGGCuCUGUCCUgu -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.