miRNA display CGI


Results 1 - 16 of 16 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
11498 5' -59.2 NC_003085.1 + 13473 0.66 0.532697
Target:  5'- uCGCGGAGcGUUuccugGGCGUcGGcCUGGCCCc -3'
miRNA:   3'- -GCGUCUC-CAG-----CUGCA-UCaGGCCGGGc -5'
11498 5' -59.2 NC_003085.1 + 29793 0.66 0.532697
Target:  5'- cCGCcaGGAGGUCGcCGUAGaUgCuGCCCu -3'
miRNA:   3'- -GCG--UCUCCAGCuGCAUC-AgGcCGGGc -5'
11498 5' -59.2 NC_003085.1 + 5485 0.66 0.522418
Target:  5'- gGCGGAcaacgCGGCGUGGggCCGGgCCGu -3'
miRNA:   3'- gCGUCUcca--GCUGCAUCa-GGCCgGGC- -5'
11498 5' -59.2 NC_003085.1 + 5348 0.66 0.502098
Target:  5'- cCGCGGAgaaggaccagGGacUCGGCGc-GUCCGGuCCCGu -3'
miRNA:   3'- -GCGUCU----------CC--AGCUGCauCAGGCC-GGGC- -5'
11498 5' -59.2 NC_003085.1 + 18684 0.66 0.482131
Target:  5'- uGCuGAGGgUGACGccGGUCaguGGCCCGc -3'
miRNA:   3'- gCGuCUCCaGCUGCa-UCAGg--CCGGGC- -5'
11498 5' -59.2 NC_003085.1 + 3940 0.67 0.424713
Target:  5'- gCGCcGcGG-CGAUGUuGUCgCGGCCCGg -3'
miRNA:   3'- -GCGuCuCCaGCUGCAuCAG-GCCGGGC- -5'
11498 5' -59.2 NC_003085.1 + 37747 0.68 0.406497
Target:  5'- aCGUcGAGGUCGGCGUccUCCuGCUCGc -3'
miRNA:   3'- -GCGuCUCCAGCUGCAucAGGcCGGGC- -5'
11498 5' -59.2 NC_003085.1 + 21644 0.68 0.380112
Target:  5'- gCGCAGGGGgugaaGGCGaAGUUCGGCagcauCCGg -3'
miRNA:   3'- -GCGUCUCCag---CUGCaUCAGGCCG-----GGC- -5'
11498 5' -59.2 NC_003085.1 + 48940 0.69 0.354899
Target:  5'- cCGC-GAGGgcagCG-CGcauccGGUCCGGCCCGc -3'
miRNA:   3'- -GCGuCUCCa---GCuGCa----UCAGGCCGGGC- -5'
11498 5' -59.2 NC_003085.1 + 20104 0.69 0.34676
Target:  5'- cCGCAGGuGG-CGGgGcuggAGUCCGGCCUa -3'
miRNA:   3'- -GCGUCU-CCaGCUgCa---UCAGGCCGGGc -5'
11498 5' -59.2 NC_003085.1 + 41914 0.69 0.330887
Target:  5'- gCGCA-AGGUCGACGUcacaccccUCGGCCCGc -3'
miRNA:   3'- -GCGUcUCCAGCUGCAuca-----GGCCGGGC- -5'
11498 5' -59.2 NC_003085.1 + 1633 0.7 0.315555
Target:  5'- -aCAGAGGa-GGCGUAGUCaUGGCCUGc -3'
miRNA:   3'- gcGUCUCCagCUGCAUCAG-GCCGGGC- -5'
11498 5' -59.2 NC_003085.1 + 30167 0.7 0.308093
Target:  5'- gGgAGAGGagcuucUUGACGUGcUCCGGCCUGu -3'
miRNA:   3'- gCgUCUCC------AGCUGCAUcAGGCCGGGC- -5'
11498 5' -59.2 NC_003085.1 + 21736 0.75 0.144073
Target:  5'- gGCGGAGGUcaucgccgagcacuaCGACGUGGcgagcauUCUGGCCCa -3'
miRNA:   3'- gCGUCUCCA---------------GCUGCAUC-------AGGCCGGGc -5'
11498 5' -59.2 NC_003085.1 + 9060 0.76 0.124879
Target:  5'- gGCGGcAGGU-GugGUGGUUCGGCCCc -3'
miRNA:   3'- gCGUC-UCCAgCugCAUCAGGCCGGGc -5'
11498 5' -59.2 NC_003085.1 + 9425 1.08 0.000479
Target:  5'- aCGCAGAGGUCGACGUAGUCCGGCCCGu -3'
miRNA:   3'- -GCGUCUCCAGCUGCAUCAGGCCGGGC- -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.