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 + 164777 0.66 0.967711
Target:  5'- aCGGAGGacGGGUUGgagauugUCGAGACGGG-CGc -3'
miRNA:   3'- -GCCUCU--CCUAGCa------GGCUCUGUCCuGU- -5'
16002 3' -55.7 NC_004065.1 + 89045 0.67 0.941844
Target:  5'- uGGAGAcgaacuugGGcgCGUCCuugagGAGACAGGGgAa -3'
miRNA:   3'- gCCUCU--------CCuaGCAGG-----CUCUGUCCUgU- -5'
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 + 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'
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 + 98227 0.66 0.964636
Target:  5'- aGGAcucGAGGAUCGagggugCCGAcGACggcucGGGACGg -3'
miRNA:   3'- gCCU---CUCCUAGCa-----GGCU-CUG-----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 + 19709 0.66 0.967711
Target:  5'- aCGcGGAGGcgUGcggccaUCCGAGAUGGGGCGc -3'
miRNA:   3'- -GCcUCUCCuaGC------AGGCUCUGUCCUGU- -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 + 19293 0.68 0.932515
Target:  5'- gGGGGAucuGGAcCGUCCGGcGACGGG-CGu -3'
miRNA:   3'- gCCUCU---CCUaGCAGGCU-CUGUCCuGU- -5'
16002 3' -55.7 NC_004065.1 + 122609 0.68 0.916853
Target:  5'- aGGGcagcacGAGGucccaGUCCGAGACGGaGACGa -3'
miRNA:   3'- gCCU------CUCCuag--CAGGCUCUGUC-CUGU- -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 + 80094 0.71 0.784262
Target:  5'- aGGAGAGGGUgaGUUCG-GGCAcGGGCAc -3'
miRNA:   3'- gCCUCUCCUAg-CAGGCuCUGU-CCUGU- -5'
16002 3' -55.7 NC_004065.1 + 101335 0.71 0.818706
Target:  5'- aGGAGGGGGaCGUggGGGACAGGAa- -3'
miRNA:   3'- gCCUCUCCUaGCAggCUCUGUCCUgu -5'
16002 3' -55.7 NC_004065.1 + 81817 0.69 0.882325
Target:  5'- uCGGAGGGGAagguguagauuugaCGUCgGGGAuCGGGGCGc -3'
miRNA:   3'- -GCCUCUCCUa-------------GCAGgCUCU-GUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 71565 0.69 0.892879
Target:  5'- gGGAGAGGcgCGUgaugaCGGcACGGGGCAu -3'
miRNA:   3'- gCCUCUCCuaGCAg----GCUcUGUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 73938 0.69 0.899199
Target:  5'- gCGaGAGuGGAUCuGgcagCCGAGACAGG-CGu -3'
miRNA:   3'- -GC-CUCuCCUAG-Ca---GGCUCUGUCCuGU- -5'
16002 3' -55.7 NC_004065.1 + 96671 0.68 0.905302
Target:  5'- gCGGgcucgcccgacGGAGGAUCGUgCGGgcGAgGGGACGa -3'
miRNA:   3'- -GCC-----------UCUCCUAGCAgGCU--CUgUCCUGU- -5'
16002 3' -55.7 NC_004065.1 + 80588 0.68 0.911188
Target:  5'- uCGGGGGGGA--GUCCGAGgACGGuACGg -3'
miRNA:   3'- -GCCUCUCCUagCAGGCUC-UGUCcUGU- -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.