miRNA display CGI


Results 1 - 12 of 12 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
30958 3' -55.5 NC_006556.1 + 10741 1.15 0.000099
Target:  5'- aGGCCGCCGCGCUAUUAUCCGACAGCCa -3'
miRNA:   3'- -CCGGCGGCGCGAUAAUAGGCUGUCGG- -5'
30958 3' -55.5 NC_006556.1 + 2412 0.79 0.05487
Target:  5'- aGCCGCCGCGUcaacGUCCGugGGUCu -3'
miRNA:   3'- cCGGCGGCGCGauaaUAGGCugUCGG- -5'
30958 3' -55.5 NC_006556.1 + 7280 0.71 0.205149
Target:  5'- aGUgGCCGCGCUA-UAUCCGgugauagagGguGCCg -3'
miRNA:   3'- cCGgCGGCGCGAUaAUAGGC---------UguCGG- -5'
30958 3' -55.5 NC_006556.1 + 4199 0.7 0.252272
Target:  5'- uGGCCaggacgauacugacgGCCGCGgUAgaggGUCCuagGGCGGCCc -3'
miRNA:   3'- -CCGG---------------CGGCGCgAUaa--UAGG---CUGUCGG- -5'
30958 3' -55.5 NC_006556.1 + 2837 0.69 0.263567
Target:  5'- aGCCGCCGCGUUGaUGUaCCcACAcCCg -3'
miRNA:   3'- cCGGCGGCGCGAUaAUA-GGcUGUcGG- -5'
30958 3' -55.5 NC_006556.1 + 15365 0.68 0.343519
Target:  5'- aGGCCGCUauggccaguauCGCUAUUAUggccaacgCCG-CGGCCa -3'
miRNA:   3'- -CCGGCGGc----------GCGAUAAUA--------GGCuGUCGG- -5'
30958 3' -55.5 NC_006556.1 + 4870 0.67 0.352413
Target:  5'- gGGuuGCCGuCcCUAUgg-CgGACGGCCu -3'
miRNA:   3'- -CCggCGGC-GcGAUAauaGgCUGUCGG- -5'
30958 3' -55.5 NC_006556.1 + 9909 0.67 0.380057
Target:  5'- gGGCgGCUugauGCGCUA--AUUCGGC-GCCa -3'
miRNA:   3'- -CCGgCGG----CGCGAUaaUAGGCUGuCGG- -5'
30958 3' -55.5 NC_006556.1 + 11613 0.67 0.389588
Target:  5'- aGGCCGCUGaGCcuuagUAUaagcaUGGCGGCCa -3'
miRNA:   3'- -CCGGCGGCgCGaua--AUAg----GCUGUCGG- -5'
30958 3' -55.5 NC_006556.1 + 13170 0.66 0.42924
Target:  5'- gGGCCaCCGUaCUGgugcaUGUgCCGGCAGUCa -3'
miRNA:   3'- -CCGGcGGCGcGAUa----AUA-GGCUGUCGG- -5'
30958 3' -55.5 NC_006556.1 + 15301 0.66 0.433335
Target:  5'- uGGCCGCgGCGUUGgccauaauagCGAUacuGGCCa -3'
miRNA:   3'- -CCGGCGgCGCGAUaauag-----GCUG---UCGG- -5'
30958 3' -55.5 NC_006556.1 + 19214 0.66 0.449937
Target:  5'- -uUCGCCGgaaaGCaccaUAUCCGACAGCa -3'
miRNA:   3'- ccGGCGGCg---CGaua-AUAGGCUGUCGg -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.