miRNA display CGI


Results 1 - 13 of 13 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
12587 3' -55.4 NC_003345.1 + 46227 0.66 0.808888
Target:  5'- gAGgUCG-CGCGGUGcGUCAugcgauacaUCGACCgGa -3'
miRNA:   3'- -UCgAGUaGUGCCAC-CAGU---------AGCUGGgC- -5'
12587 3' -55.4 NC_003345.1 + 24344 0.66 0.799614
Target:  5'- uAGCUCAacuggacgaaaUCGCaGGcGGaaucaaCAUCGACCCGu -3'
miRNA:   3'- -UCGAGU-----------AGUG-CCaCCa-----GUAGCUGGGC- -5'
12587 3' -55.4 NC_003345.1 + 15096 0.66 0.790174
Target:  5'- uGCU-AUCuCGGUGGacUCGUCG-CCCGu -3'
miRNA:   3'- uCGAgUAGuGCCACC--AGUAGCuGGGC- -5'
12587 3' -55.4 NC_003345.1 + 50332 0.66 0.780579
Target:  5'- cGGCUCcuucggggGUCGCGGUGGUaauggaggCAaCGGCUCa -3'
miRNA:   3'- -UCGAG--------UAGUGCCACCA--------GUaGCUGGGc -5'
12587 3' -55.4 NC_003345.1 + 35719 0.67 0.770839
Target:  5'- uGUUCAUCcacaauGCGGgcuUCAUCGACCCc -3'
miRNA:   3'- uCGAGUAG------UGCCaccAGUAGCUGGGc -5'
12587 3' -55.4 NC_003345.1 + 8078 0.67 0.741866
Target:  5'- cGGUUCAUC-CGGUguggaaggccGGUCAguugaccgaccccgaCGACCCGa -3'
miRNA:   3'- -UCGAGUAGuGCCA----------CCAGUa--------------GCUGGGC- -5'
12587 3' -55.4 NC_003345.1 + 37599 0.68 0.709931
Target:  5'- aAGUUCAugccggacugUCACGG-GGgacUCGGCCCGg -3'
miRNA:   3'- -UCGAGU----------AGUGCCaCCaguAGCUGGGC- -5'
12587 3' -55.4 NC_003345.1 + 35050 0.69 0.635736
Target:  5'- aAGCUCAugUgACGGUGGcgCGUC-ACCUGa -3'
miRNA:   3'- -UCGAGU--AgUGCCACCa-GUAGcUGGGC- -5'
12587 3' -55.4 NC_003345.1 + 36461 0.69 0.635736
Target:  5'- cGUUCGUCACGGU--UCGaccaCGGCCCGa -3'
miRNA:   3'- uCGAGUAGUGCCAccAGUa---GCUGGGC- -5'
12587 3' -55.4 NC_003345.1 + 45472 0.69 0.635736
Target:  5'- gAGC-CGUCACGGUacacGGUCA--GGCCCu -3'
miRNA:   3'- -UCGaGUAGUGCCA----CCAGUagCUGGGc -5'
12587 3' -55.4 NC_003345.1 + 36191 0.7 0.591992
Target:  5'- aAGCUCGUCgggauguucucgaACGGUGuGaaAUCGACUCGa -3'
miRNA:   3'- -UCGAGUAG-------------UGCCAC-CagUAGCUGGGC- -5'
12587 3' -55.4 NC_003345.1 + 21843 0.71 0.50964
Target:  5'- cAGCUCGUCGCuGGUGaaGUCggUGACgCCGa -3'
miRNA:   3'- -UCGAGUAGUG-CCAC--CAGuaGCUG-GGC- -5'
12587 3' -55.4 NC_003345.1 + 3493 1.09 0.001549
Target:  5'- cAGCUCAUCACGGUGGUCAUCGACCCGa -3'
miRNA:   3'- -UCGAGUAGUGCCACCAGUAGCUGGGC- -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.