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 + 129328 0.66 0.973284
Target:  5'- aGGAccaGGGGGUCauccgaUCCGAG-CGGGAUAa -3'
miRNA:   3'- gCCU---CUCCUAGc-----AGGCUCuGUCCUGU- -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 + 139481 0.66 0.973284
Target:  5'- -cGAGGGGGcCGUC--GGGCGGGACGa -3'
miRNA:   3'- gcCUCUCCUaGCAGgcUCUGUCCUGU- -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 + 129986 0.66 0.973284
Target:  5'- aGGcucugcGGAGGAUacCGccCCGAGGCAGcGACGa -3'
miRNA:   3'- gCC------UCUCCUA--GCa-GGCUCUGUC-CUGU- -5'
16002 3' -55.7 NC_004065.1 + 43275 0.66 0.973284
Target:  5'- aGGGGGGGAU-GUCCGGcGugGcGACGa -3'
miRNA:   3'- gCCUCUCCUAgCAGGCU-CugUcCUGU- -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 + 176324 0.66 0.970592
Target:  5'- gGGGGAGGAgggCGgUCG-GGCGGcGACAc -3'
miRNA:   3'- gCCUCUCCUa--GCaGGCuCUGUC-CUGU- -5'
16002 3' -55.7 NC_004065.1 + 78212 0.66 0.970592
Target:  5'- uCGGAGAGGAccgggUCG-CUGAugagcgcgGAgAGGACGu -3'
miRNA:   3'- -GCCUCUCCU-----AGCaGGCU--------CUgUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 127474 0.66 0.967711
Target:  5'- cCGGGGAGGugGUCGggCGcGGCGGGAg- -3'
miRNA:   3'- -GCCUCUCC--UAGCagGCuCUGUCCUgu -5'
16002 3' -55.7 NC_004065.1 + 19709 0.66 0.967711
Target:  5'- aCGcGGAGGcgUGcggccaUCCGAGAUGGGGCGc -3'
miRNA:   3'- -GCcUCUCCuaGC------AGGCUCUGUCCUGU- -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 + 164777 0.66 0.967711
Target:  5'- aCGGAGGacGGGUUGgagauugUCGAGACGGG-CGc -3'
miRNA:   3'- -GCCUCU--CCUAGCa------GGCUCUGUCCuGU- -5'
16002 3' -55.7 NC_004065.1 + 98227 0.66 0.964636
Target:  5'- aGGAcucGAGGAUCGagggugCCGAcGACggcucGGGACGg -3'
miRNA:   3'- gCCU---CUCCUAGCa-----GGCU-CUG-----UCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 136135 0.66 0.961361
Target:  5'- uCGGGGAGGGaaG-CCG-GACAGGGa- -3'
miRNA:   3'- -GCCUCUCCUagCaGGCuCUGUCCUgu -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 + 136167 0.66 0.961361
Target:  5'- uCGGGGAGGGaaG-CCG-GACAGGGa- -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 + 89798 0.67 0.954193
Target:  5'- uGGAGAacAUgGUCCGGuaauacggaacGACAGGACGg -3'
miRNA:   3'- gCCUCUccUAgCAGGCU-----------CUGUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 59793 0.67 0.954193
Target:  5'- aCGGGccGGuucUCG-CCGAGACAGGAgAg -3'
miRNA:   3'- -GCCUcuCCu--AGCaGGCUCUGUCCUgU- -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.