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
30689 3' -56.3 NC_006552.1 + 561 0.69 0.495187
Target:  5'- gGUAcGGCCGACGCUGuUCGCCGc---- -3'
miRNA:   3'- -CGUaCCGGUUGCGGC-AGCGGCucuug -5'
30689 3' -56.3 NC_006552.1 + 1438 0.67 0.621811
Target:  5'- aCAUGaccgccGCCAauauGCGCCagGUCGCCGcGGACg -3'
miRNA:   3'- cGUAC------CGGU----UGCGG--CAGCGGCuCUUG- -5'
30689 3' -56.3 NC_006552.1 + 1714 0.68 0.568105
Target:  5'- cGCu--GCCGGcCGCCGgCGCCG-GAGCa -3'
miRNA:   3'- -CGuacCGGUU-GCGGCaGCGGCuCUUG- -5'
30689 3' -56.3 NC_006552.1 + 2118 1.11 0.000729
Target:  5'- gGCAUGGCCAACGCCGUCGCCGAGAACu -3'
miRNA:   3'- -CGUACCGGUUGCGGCAGCGGCUCUUG- -5'
30689 3' -56.3 NC_006552.1 + 2234 0.78 0.157962
Target:  5'- cGCAcgaacUGGCCGGCGCCGUucuucUGCCGGcGGACc -3'
miRNA:   3'- -CGU-----ACCGGUUGCGGCA-----GCGGCU-CUUG- -5'
30689 3' -56.3 NC_006552.1 + 4653 0.69 0.505367
Target:  5'- ---cGGCCAGCaCCGuUCGCCGGcGACu -3'
miRNA:   3'- cguaCCGGUUGcGGC-AGCGGCUcUUG- -5'
30689 3' -56.3 NC_006552.1 + 6589 0.66 0.707668
Target:  5'- -gAUGGUgGGCGUCGguggccgCGCCGGGcaGACu -3'
miRNA:   3'- cgUACCGgUUGCGGCa------GCGGCUC--UUG- -5'
30689 3' -56.3 NC_006552.1 + 7008 0.68 0.578777
Target:  5'- cGCAagaaggcccUGGCCGaagccACGCUG-CGCCGGGuGGCu -3'
miRNA:   3'- -CGU---------ACCGGU-----UGCGGCaGCGGCUC-UUG- -5'
30689 3' -56.3 NC_006552.1 + 11195 0.67 0.621811
Target:  5'- cGCGUGGCCcugGCCcUgGCCGcGAGCc -3'
miRNA:   3'- -CGUACCGGuugCGGcAgCGGCuCUUG- -5'
30689 3' -56.3 NC_006552.1 + 12255 0.67 0.664978
Target:  5'- cGCcUGcGCCGGCGcCCGcCGCCGGu-GCg -3'
miRNA:   3'- -CGuAC-CGGUUGC-GGCaGCGGCUcuUG- -5'
30689 3' -56.3 NC_006552.1 + 14164 0.73 0.316092
Target:  5'- cGCcUGGCCGAUGCCGgCGaucCCGAGAc- -3'
miRNA:   3'- -CGuACCGGUUGCGGCaGC---GGCUCUug -5'
30689 3' -56.3 NC_006552.1 + 15787 0.69 0.515636
Target:  5'- cGCAgucaGGCCuACGCCuggcUCGCCGcuGAACu -3'
miRNA:   3'- -CGUa---CCGGuUGCGGc---AGCGGCu-CUUG- -5'
30689 3' -56.3 NC_006552.1 + 16614 0.71 0.408329
Target:  5'- uGCAcauUGG-CGACGacaucaccgugaCCGUCGUCGAGAACa -3'
miRNA:   3'- -CGU---ACCgGUUGC------------GGCAGCGGCUCUUG- -5'
30689 3' -56.3 NC_006552.1 + 17540 0.71 0.414743
Target:  5'- aGCGUGGCCG--GCUGUCGggaucucaggucccCCGAGAAa -3'
miRNA:   3'- -CGUACCGGUugCGGCAGC--------------GGCUCUUg -5'
30689 3' -56.3 NC_006552.1 + 24019 0.66 0.725505
Target:  5'- cGCAUGguccaGCCAcaugaucgcgaucaGCGUCGUaaaGCCGAGcuGACg -3'
miRNA:   3'- -CGUAC-----CGGU--------------UGCGGCAg--CGGCUC--UUG- -5'
30689 3' -56.3 NC_006552.1 + 24055 0.67 0.664978
Target:  5'- cGCgAUGauGCCGcaGCGCUgGUCGCCGuuGAACa -3'
miRNA:   3'- -CG-UAC--CGGU--UGCGG-CAGCGGCu-CUUG- -5'
30689 3' -56.3 NC_006552.1 + 24212 0.66 0.71714
Target:  5'- aCGUGGCCAcgcgcacACuGCUGUUGuuGuGGGCg -3'
miRNA:   3'- cGUACCGGU-------UG-CGGCAGCggCuCUUG- -5'
30689 3' -56.3 NC_006552.1 + 27034 0.66 0.697076
Target:  5'- uGC-UGGCCGcgguaGCUGUuggUGCUGGGAACg -3'
miRNA:   3'- -CGuACCGGUug---CGGCA---GCGGCUCUUG- -5'
30689 3' -56.3 NC_006552.1 + 32315 0.71 0.405599
Target:  5'- aGCAUGGgC-ACGCCGUCGCuCGccaucugcgccaccAGGGCc -3'
miRNA:   3'- -CGUACCgGuUGCGGCAGCG-GC--------------UCUUG- -5'
30689 3' -56.3 NC_006552.1 + 32455 0.66 0.686423
Target:  5'- cGCgAUGGUUGaggaaucgacGCGCCagGUCGCCGGGcACg -3'
miRNA:   3'- -CG-UACCGGU----------UGCGG--CAGCGGCUCuUG- -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.