miRNA display CGI


Results 1 - 20 of 56 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
9005 3' -59.4 NC_002512.2 + 15290 0.66 0.880181
Target:  5'- -gUCGGGcugcaggaagagcGUCUCgucgCCCAGGCGGg -3'
miRNA:   3'- cgAGCCC-------------UAGAGgcuaGGGUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 122175 0.66 0.874083
Target:  5'- --aCGG--UCUCgGAUCCCAacacGGCGGUg -3'
miRNA:   3'- cgaGCCcuAGAGgCUAGGGU----CCGCCA- -5'
9005 3' -59.4 NC_002512.2 + 159360 0.66 0.867828
Target:  5'- gGCgUCGGGGUCggggcgucccauucgCgGGUCCCgcggcgucgGGGCGGa -3'
miRNA:   3'- -CG-AGCCCUAGa--------------GgCUAGGG---------UCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 12413 0.66 0.867123
Target:  5'- cGC-CGGGAUCgcgagcucgCCGcgCgCgAGGCGGg -3'
miRNA:   3'- -CGaGCCCUAGa--------GGCuaG-GgUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 96301 0.66 0.867123
Target:  5'- gGC-CGGcccgCUCgGGUCCCcGGCGGUc -3'
miRNA:   3'- -CGaGCCcua-GAGgCUAGGGuCCGCCA- -5'
9005 3' -59.4 NC_002512.2 + 206129 0.66 0.867123
Target:  5'- gGCgcagCGGGGcgUCCGGUCgCCAGaCGGUc -3'
miRNA:   3'- -CGa---GCCCUagAGGCUAG-GGUCcGCCA- -5'
9005 3' -59.4 NC_002512.2 + 108445 0.66 0.867123
Target:  5'- gGC-CGGGGggUCCcucCCCGGGCGGc -3'
miRNA:   3'- -CGaGCCCUagAGGcuaGGGUCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 80855 0.66 0.859975
Target:  5'- cCUCGGGAcgCggggCuCGGUgUCGGGCGGUc -3'
miRNA:   3'- cGAGCCCUa-Ga---G-GCUAgGGUCCGCCA- -5'
9005 3' -59.4 NC_002512.2 + 27627 0.66 0.85925
Target:  5'- aCUUGGGAUCUCUucgaaaaGAUCCacgaaGCGGUa -3'
miRNA:   3'- cGAGCCCUAGAGG-------CUAGGguc--CGCCA- -5'
9005 3' -59.4 NC_002512.2 + 8675 0.66 0.852643
Target:  5'- cGUUCGGGAccucUCUCCGuacguacucggGUCCCguccacuccgAGGuCGGUc -3'
miRNA:   3'- -CGAGCCCU----AGAGGC-----------UAGGG----------UCC-GCCA- -5'
9005 3' -59.4 NC_002512.2 + 224379 0.66 0.852643
Target:  5'- gGUcCGGGAcCUCgCGAcCCCGGcGCGGa -3'
miRNA:   3'- -CGaGCCCUaGAG-GCUaGGGUC-CGCCa -5'
9005 3' -59.4 NC_002512.2 + 90500 0.66 0.852643
Target:  5'- --aCGGGAUCggggCCGAggCCGgcGGCGGa -3'
miRNA:   3'- cgaGCCCUAGa---GGCUagGGU--CCGCCa -5'
9005 3' -59.4 NC_002512.2 + 37625 0.66 0.852643
Target:  5'- uGCcgUGGGAUCUCCGAgaCCCGaacguaGCGGc -3'
miRNA:   3'- -CGa-GCCCUAGAGGCUa-GGGUc-----CGCCa -5'
9005 3' -59.4 NC_002512.2 + 126968 0.67 0.845132
Target:  5'- cGCUCccaguaGGGGUCcgcggUCCucUCCCAGcGCGGg -3'
miRNA:   3'- -CGAG------CCCUAG-----AGGcuAGGGUC-CGCCa -5'
9005 3' -59.4 NC_002512.2 + 107006 0.67 0.845132
Target:  5'- gGC-CGGGGUCggCCGAgagCCGGGCGc- -3'
miRNA:   3'- -CGaGCCCUAGa-GGCUag-GGUCCGCca -5'
9005 3' -59.4 NC_002512.2 + 131680 0.67 0.837448
Target:  5'- uGCUCGGGAaggUCcCCGAgaacgccaUCCCucGGaCGGUc -3'
miRNA:   3'- -CGAGCCCU---AGaGGCU--------AGGGu-CC-GCCA- -5'
9005 3' -59.4 NC_002512.2 + 6675 0.67 0.83667
Target:  5'- gGC-CGGGAcgcgCUCCGGgacgccgUCCCcgucGGGCGGc -3'
miRNA:   3'- -CGaGCCCUa---GAGGCU-------AGGG----UCCGCCa -5'
9005 3' -59.4 NC_002512.2 + 225838 0.67 0.829597
Target:  5'- cGCggGGGAUCgagCCGcuccuGUCCCGGGUGu- -3'
miRNA:   3'- -CGagCCCUAGa--GGC-----UAGGGUCCGCca -5'
9005 3' -59.4 NC_002512.2 + 69126 0.67 0.821586
Target:  5'- cGCUcCGGGAcCUCCGugCCCGGGgcCGGc -3'
miRNA:   3'- -CGA-GCCCUaGAGGCuaGGGUCC--GCCa -5'
9005 3' -59.4 NC_002512.2 + 183222 0.67 0.820776
Target:  5'- --aCGGGAUCgaccCCGAggaccccUUCCAGGUGGc -3'
miRNA:   3'- cgaGCCCUAGa---GGCU-------AGGGUCCGCCa -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.