miRNA display CGI


Results 1 - 20 of 31 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
19275 5' -58.1 NC_004685.1 + 66256 1.09 0.000663
Target:  5'- uGUGCGGCCCGUGCAAUCAGGGCAUCGg -3'
miRNA:   3'- -CACGCCGGGCACGUUAGUCCCGUAGC- -5'
19275 5' -58.1 NC_004685.1 + 25870 0.77 0.131519
Target:  5'- -aGCGGCCCGcGCAgGUCGGGGCGg-- -3'
miRNA:   3'- caCGCCGGGCaCGU-UAGUCCCGUagc -5'
19275 5' -58.1 NC_004685.1 + 22339 0.76 0.150507
Target:  5'- -gGCGGCUgGUGgAccggcgaguAUCAGGGCAUCGa -3'
miRNA:   3'- caCGCCGGgCACgU---------UAGUCCCGUAGC- -5'
19275 5' -58.1 NC_004685.1 + 21461 0.73 0.253277
Target:  5'- -gGCGGCCgGUGUucgaCAcGGGCGUCGa -3'
miRNA:   3'- caCGCCGGgCACGuua-GU-CCCGUAGC- -5'
19275 5' -58.1 NC_004685.1 + 1072 0.72 0.284596
Target:  5'- gGUGuuGCCCGcGCAGUCcugcgggcggaugcGGGGCAUCa -3'
miRNA:   3'- -CACgcCGGGCaCGUUAG--------------UCCCGUAGc -5'
19275 5' -58.1 NC_004685.1 + 14720 0.72 0.303931
Target:  5'- -cGCGGCCCGUGCGcuggagccggcacugGUCgaAGcGGcCAUCGa -3'
miRNA:   3'- caCGCCGGGCACGU---------------UAG--UC-CC-GUAGC- -5'
19275 5' -58.1 NC_004685.1 + 56161 0.71 0.32349
Target:  5'- -cGCGGUCgGUGCcucGUCGGGGCGguccCGg -3'
miRNA:   3'- caCGCCGGgCACGu--UAGUCCCGUa---GC- -5'
19275 5' -58.1 NC_004685.1 + 7792 0.7 0.398261
Target:  5'- -cGaCGGCCUGUgGCAcUCGGGGCcgGUCa -3'
miRNA:   3'- caC-GCCGGGCA-CGUuAGUCCCG--UAGc -5'
19275 5' -58.1 NC_004685.1 + 36787 0.7 0.398261
Target:  5'- -gGCGGCCCGaGCcg-CAGGGCuggugCGu -3'
miRNA:   3'- caCGCCGGGCaCGuuaGUCCCGua---GC- -5'
19275 5' -58.1 NC_004685.1 + 58321 0.69 0.407226
Target:  5'- -gGuCGGCCCGgccgGCAcagccucgguGUCGGGGCggGUCGc -3'
miRNA:   3'- caC-GCCGGGCa---CGU----------UAGUCCCG--UAGC- -5'
19275 5' -58.1 NC_004685.1 + 4709 0.69 0.407226
Target:  5'- uGUGCGGCUac-GCGAUCaucccggccgaGGGGCAUCc -3'
miRNA:   3'- -CACGCCGGgcaCGUUAG-----------UCCCGUAGc -5'
19275 5' -58.1 NC_004685.1 + 18353 0.69 0.416317
Target:  5'- aUGCGGCCgGUgGCGAUgAGGugacgaucaGCGUCGc -3'
miRNA:   3'- cACGCCGGgCA-CGUUAgUCC---------CGUAGC- -5'
19275 5' -58.1 NC_004685.1 + 18652 0.69 0.453882
Target:  5'- uGUGCGGcCCCGguccugacGCAgAUCAGGGCu--- -3'
miRNA:   3'- -CACGCC-GGGCa-------CGU-UAGUCCCGuagc -5'
19275 5' -58.1 NC_004685.1 + 64832 0.68 0.473342
Target:  5'- aUGcCGGCUCGUcuaaauccGCAgGUCAGGGCGUUc -3'
miRNA:   3'- cAC-GCCGGGCA--------CGU-UAGUCCCGUAGc -5'
19275 5' -58.1 NC_004685.1 + 15021 0.68 0.483229
Target:  5'- uGUGauGCCCuaaguugcaguaGUGCAGUaguguGGGGCAUCGu -3'
miRNA:   3'- -CACgcCGGG------------CACGUUAg----UCCCGUAGC- -5'
19275 5' -58.1 NC_004685.1 + 12769 0.68 0.483229
Target:  5'- -aGCGGCUCacacaGUGCAcGUCAGGcCAUCGc -3'
miRNA:   3'- caCGCCGGG-----CACGU-UAGUCCcGUAGC- -5'
19275 5' -58.1 NC_004685.1 + 24400 0.68 0.497233
Target:  5'- -cGCGGCCCcgacaccaacauCAGUCcguGGGCAUCGg -3'
miRNA:   3'- caCGCCGGGcac---------GUUAGu--CCCGUAGC- -5'
19275 5' -58.1 NC_004685.1 + 65130 0.68 0.507348
Target:  5'- -cGCGGCCCGaaugucGCAAUgauugacauucccgaCAGGGCggCGc -3'
miRNA:   3'- caCGCCGGGCa-----CGUUA---------------GUCCCGuaGC- -5'
19275 5' -58.1 NC_004685.1 + 18116 0.67 0.534034
Target:  5'- --aCGGCCCGUcCGAguUCAGGGCggUGg -3'
miRNA:   3'- cacGCCGGGCAcGUU--AGUCCCGuaGC- -5'
19275 5' -58.1 NC_004685.1 + 1914 0.67 0.554896
Target:  5'- cUGCGGCCgCGguugGCG-UCAGcGGCGaCGg -3'
miRNA:   3'- cACGCCGG-GCa---CGUuAGUC-CCGUaGC- -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.