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
13004 5' -54.1 NC_003387.1 + 35121 0.66 0.747877
Target:  5'- -cGGCGGCCUGCUcaagcGGCGgccacugcaGGUCGAcCAGc -3'
miRNA:   3'- acUCGUCGGACGA-----CUGC---------UCAGUU-GUC- -5'
13004 5' -54.1 NC_003387.1 + 49836 0.66 0.747877
Target:  5'- cGAGUugaucGCCUGCUGcaGCaGGaUCAGCGGg -3'
miRNA:   3'- aCUCGu----CGGACGAC--UGcUC-AGUUGUC- -5'
13004 5' -54.1 NC_003387.1 + 47978 0.66 0.745744
Target:  5'- cUGGGCGGCaacggcaaacggUGCUucgagcacuucGACGAGUCGGCGc -3'
miRNA:   3'- -ACUCGUCGg-----------ACGA-----------CUGCUCAGUUGUc -5'
13004 5' -54.1 NC_003387.1 + 26149 0.66 0.737162
Target:  5'- cGcGCGGCCUGaccccGAgGAGUCAACc- -3'
miRNA:   3'- aCuCGUCGGACga---CUgCUCAGUUGuc -5'
13004 5' -54.1 NC_003387.1 + 26463 0.66 0.726337
Target:  5'- cGAGCAcGCCcaUGCUGACca-UCAGCAc -3'
miRNA:   3'- aCUCGU-CGG--ACGACUGcucAGUUGUc -5'
13004 5' -54.1 NC_003387.1 + 49185 0.66 0.715412
Target:  5'- cUGAGCAGCC-GCcuggGGCG-G-CGGCGGg -3'
miRNA:   3'- -ACUCGUCGGaCGa---CUGCuCaGUUGUC- -5'
13004 5' -54.1 NC_003387.1 + 26245 0.66 0.715412
Target:  5'- -cGGCGaucGCCgUGCUGAUG-GUCAGCAu -3'
miRNA:   3'- acUCGU---CGG-ACGACUGCuCAGUUGUc -5'
13004 5' -54.1 NC_003387.1 + 50139 0.66 0.715412
Target:  5'- --uGCGGCCagGCgucgaccGACGGGUCGGCGu -3'
miRNA:   3'- acuCGUCGGa-CGa------CUGCUCAGUUGUc -5'
13004 5' -54.1 NC_003387.1 + 6956 0.66 0.704401
Target:  5'- aGGGCAcCCUGCUGGCcgcccucGUCGAgGGg -3'
miRNA:   3'- aCUCGUcGGACGACUGcu-----CAGUUgUC- -5'
13004 5' -54.1 NC_003387.1 + 29168 0.67 0.682169
Target:  5'- cGAGCGGCCgucGUUcGAuucCGAGUCGuGCGGg -3'
miRNA:   3'- aCUCGUCGGa--CGA-CU---GCUCAGU-UGUC- -5'
13004 5' -54.1 NC_003387.1 + 29069 0.67 0.682169
Target:  5'- -cGGCguuucuagGGCCUGUUGACGcGcCAACAGu -3'
miRNA:   3'- acUCG--------UCGGACGACUGCuCaGUUGUC- -5'
13004 5' -54.1 NC_003387.1 + 10777 0.67 0.682169
Target:  5'- -uGGCGGCCUGCaucGuCGGGUCGuCGGc -3'
miRNA:   3'- acUCGUCGGACGa--CuGCUCAGUuGUC- -5'
13004 5' -54.1 NC_003387.1 + 46388 0.67 0.659736
Target:  5'- gGGcGCAGCgUGUUGAC-AGcUCAACAGu -3'
miRNA:   3'- aCU-CGUCGgACGACUGcUC-AGUUGUC- -5'
13004 5' -54.1 NC_003387.1 + 21801 0.68 0.625912
Target:  5'- -cGGCGGCCaGCUcGGCGAG-CGACGc -3'
miRNA:   3'- acUCGUCGGaCGA-CUGCUCaGUUGUc -5'
13004 5' -54.1 NC_003387.1 + 38971 0.68 0.614635
Target:  5'- cGAGUAGCUaGCUGGCGAaaCAACc- -3'
miRNA:   3'- aCUCGUCGGaCGACUGCUcaGUUGuc -5'
13004 5' -54.1 NC_003387.1 + 25287 0.68 0.603373
Target:  5'- cGGGCAGUCaGCcagGGCGAcGUCGGCGc -3'
miRNA:   3'- aCUCGUCGGaCGa--CUGCU-CAGUUGUc -5'
13004 5' -54.1 NC_003387.1 + 11151 0.68 0.592138
Target:  5'- cGGGCA-CCUGgUGGCaGAG-CGACAGg -3'
miRNA:   3'- aCUCGUcGGACgACUG-CUCaGUUGUC- -5'
13004 5' -54.1 NC_003387.1 + 38498 0.69 0.569782
Target:  5'- cGAGCGGCCguggGCguGCGAGggCGGCAa -3'
miRNA:   3'- aCUCGUCGGa---CGacUGCUCa-GUUGUc -5'
13004 5' -54.1 NC_003387.1 + 159 0.69 0.55868
Target:  5'- cGAGCugGGCCUGCUGGcCGAcGgcaaGACGGu -3'
miRNA:   3'- aCUCG--UCGGACGACU-GCU-Cag--UUGUC- -5'
13004 5' -54.1 NC_003387.1 + 5034 0.69 0.557573
Target:  5'- aGGGCGGCgCUGC--GCGAGUCGgugcucaGCGGu -3'
miRNA:   3'- aCUCGUCG-GACGacUGCUCAGU-------UGUC- -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.