miRNA display CGI


Results 1 - 20 of 32 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
31728 3' -55.6 NC_006938.1 + 366 0.68 0.628862
Target:  5'- --aACUCGAACGAGGuCCGGGUGGa-- -3'
miRNA:   3'- gccUGGGCUUGUUUC-GGCCCAUCguc -5'
31728 3' -55.6 NC_006938.1 + 2106 0.7 0.515686
Target:  5'- uGGAgCCGGACAGGGUCacuccugucacgcaGGUGGCAGc -3'
miRNA:   3'- gCCUgGGCUUGUUUCGGc-------------CCAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 2664 0.67 0.682954
Target:  5'- aGGGUCCGAACgGAAGCCGGGg----- -3'
miRNA:   3'- gCCUGGGCUUG-UUUCGGCCCaucguc -5'
31728 3' -55.6 NC_006938.1 + 4279 0.68 0.628862
Target:  5'- aGGACgUGAACGgaGAGCCGGuGgAGCGc -3'
miRNA:   3'- gCCUGgGCUUGU--UUCGGCC-CaUCGUc -5'
31728 3' -55.6 NC_006938.1 + 4476 0.66 0.746179
Target:  5'- aGGGCCCaGAAC-AAGCaGGaGUGGCu- -3'
miRNA:   3'- gCCUGGG-CUUGuUUCGgCC-CAUCGuc -5'
31728 3' -55.6 NC_006938.1 + 4842 0.74 0.319216
Target:  5'- uGGugCCGAAauCAGcgguuaugucggcAGCCGGGUAGguGu -3'
miRNA:   3'- gCCugGGCUU--GUU-------------UCGGCCCAUCguC- -5'
31728 3' -55.6 NC_006938.1 + 8061 0.69 0.571609
Target:  5'- gCGuGGCCCcuccguggucgucuCuuGGCCGGGUGGCGGg -3'
miRNA:   3'- -GC-CUGGGcuu-----------GuuUCGGCCCAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 8119 0.69 0.542884
Target:  5'- aCGGACCCGAugAggAAGCCGaucuGG-GGCGa -3'
miRNA:   3'- -GCCUGGGCUugU--UUCGGC----CCaUCGUc -5'
31728 3' -55.6 NC_006938.1 + 13318 0.68 0.607176
Target:  5'- cCGGACCCGccgGACcccGGCCuGGaUGGCGGu -3'
miRNA:   3'- -GCCUGGGC---UUGuu-UCGGcCC-AUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 13578 0.66 0.746179
Target:  5'- uGGA-CCGAGCGcGGCCGGaGUcGaCAGg -3'
miRNA:   3'- gCCUgGGCUUGUuUCGGCC-CAuC-GUC- -5'
31728 3' -55.6 NC_006938.1 + 15843 0.7 0.50127
Target:  5'- aGGACCUGGuCAuguuccuggacGAGCCGGGUGccGUGGg -3'
miRNA:   3'- gCCUGGGCUuGU-----------UUCGGCCCAU--CGUC- -5'
31728 3' -55.6 NC_006938.1 + 16241 0.7 0.48099
Target:  5'- cCGGACCUGAuCAAGGCCauccaGUGGCAc -3'
miRNA:   3'- -GCCUGGGCUuGUUUCGGcc---CAUCGUc -5'
31728 3' -55.6 NC_006938.1 + 16754 0.72 0.386326
Target:  5'- aGGAUCCGGACGucGgCGGGcuGCAGg -3'
miRNA:   3'- gCCUGGGCUUGUuuCgGCCCauCGUC- -5'
31728 3' -55.6 NC_006938.1 + 19303 0.68 0.628862
Target:  5'- gCGGACUacgcaGGGCgGAGGCCGgaGGUGGCAc -3'
miRNA:   3'- -GCCUGGg----CUUG-UUUCGGC--CCAUCGUc -5'
31728 3' -55.6 NC_006938.1 + 21607 0.68 0.607176
Target:  5'- -cGugCCGAAC-GAGCCGGGUc-CAGa -3'
miRNA:   3'- gcCugGGCUUGuUUCGGCCCAucGUC- -5'
31728 3' -55.6 NC_006938.1 + 25318 0.72 0.395232
Target:  5'- cCGGgauGCCCGAACGgucgacugguccGAGCCGGGUcuGCGc -3'
miRNA:   3'- -GCC---UGGGCUUGU------------UUCGGCCCAu-CGUc -5'
31728 3' -55.6 NC_006938.1 + 26572 0.7 0.521916
Target:  5'- aGGcgaACCUGGACAAGGCCcucgucaagcuGGGacUGGCAGa -3'
miRNA:   3'- gCC---UGGGCUUGUUUCGG-----------CCC--AUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 28090 0.67 0.693672
Target:  5'- cCGG-CCCGAcACAcggagGAGCCcgaucuGGUGGCGGa -3'
miRNA:   3'- -GCCuGGGCU-UGU-----UUCGGc-----CCAUCGUC- -5'
31728 3' -55.6 NC_006938.1 + 30299 0.68 0.628862
Target:  5'- gGGAaugaagaacCCCGuccgcACGAAGCCGGGUcAGCc- -3'
miRNA:   3'- gCCU---------GGGCu----UGUUUCGGCCCA-UCGuc -5'
31728 3' -55.6 NC_006938.1 + 30629 0.67 0.65814
Target:  5'- gGGAgCaCGAACGcgcccGAGCCGucgacccuggcucaGGUGGCAGa -3'
miRNA:   3'- gCCUgG-GCUUGU-----UUCGGC--------------CCAUCGUC- -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.