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
1583 3' -51.3 NC_001347.2 + 229036 0.66 0.998583
Target:  5'- -gGCGUCUgggugAAGCGGcgugGUgUGGGUGCu -3'
miRNA:   3'- ggCGCAGAa----UUCGCC----UAgGCUCAUGu -5'
1583 3' -51.3 NC_001347.2 + 76069 0.66 0.997984
Target:  5'- gCGCucgCUcAGGCGGAUCUGcucGUGCAg -3'
miRNA:   3'- gGCGca-GAaUUCGCCUAGGCu--CAUGU- -5'
1583 3' -51.3 NC_001347.2 + 129497 0.66 0.997984
Target:  5'- gCGCGUCUgcagcGCGGcgCCGccucgucgGGUACc -3'
miRNA:   3'- gGCGCAGAauu--CGCCuaGGC--------UCAUGu -5'
1583 3' -51.3 NC_001347.2 + 173692 0.66 0.997612
Target:  5'- aCCGCGguggcGGCGGugguUCCG-GUACGc -3'
miRNA:   3'- -GGCGCagaauUCGCCu---AGGCuCAUGU- -5'
1583 3' -51.3 NC_001347.2 + 138702 0.66 0.997612
Target:  5'- gUGCGUCggcuAGCGG-UCUG-GUGCGa -3'
miRNA:   3'- gGCGCAGaau-UCGCCuAGGCuCAUGU- -5'
1583 3' -51.3 NC_001347.2 + 115522 0.67 0.996695
Target:  5'- gCCGCG-CU--AGCGGG-CUGcAGUACAc -3'
miRNA:   3'- -GGCGCaGAauUCGCCUaGGC-UCAUGU- -5'
1583 3' -51.3 NC_001347.2 + 202223 0.68 0.993989
Target:  5'- cCCGCGUCUcccaCGGA-CCGuGUGCc -3'
miRNA:   3'- -GGCGCAGAauucGCCUaGGCuCAUGu -5'
1583 3' -51.3 NC_001347.2 + 114465 0.68 0.993989
Target:  5'- cCCGCG-CUUGAGCGGcggacugCUGAcgcgcuuuGUGCAg -3'
miRNA:   3'- -GGCGCaGAAUUCGCCua-----GGCU--------CAUGU- -5'
1583 3' -51.3 NC_001347.2 + 101690 0.69 0.985213
Target:  5'- aCGCGUCUggccgAAGCGGccaCCGAuaGCAu -3'
miRNA:   3'- gGCGCAGAa----UUCGCCua-GGCUcaUGU- -5'
1583 3' -51.3 NC_001347.2 + 22867 0.7 0.977009
Target:  5'- -aGCGUCgccauauuuAGCGGccacGUCUGGGUGCAg -3'
miRNA:   3'- ggCGCAGaau------UCGCC----UAGGCUCAUGU- -5'
1583 3' -51.3 NC_001347.2 + 228743 0.71 0.955339
Target:  5'- uCCGCG-CggGGGaCGGGguagCCGAGUGCu -3'
miRNA:   3'- -GGCGCaGaaUUC-GCCUa---GGCUCAUGu -5'
1583 3' -51.3 NC_001347.2 + 208645 0.78 0.672834
Target:  5'- aCCGCGUCUgUGAGCGcGAUCCGAa---- -3'
miRNA:   3'- -GGCGCAGA-AUUCGC-CUAGGCUcaugu -5'
1583 3' -51.3 NC_001347.2 + 183649 1.11 0.010095
Target:  5'- gCCGCGUCUUAAGCGGAUCCGAGUACAg -3'
miRNA:   3'- -GGCGCAGAAUUCGCCUAGGCUCAUGU- -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.