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
28523 3' -61.7 NC_005946.1 + 1537 0.66 0.539961
Target:  5'- -cGGCCCUcaGGGCCaccaucUCCU-CGGGAgCUu -3'
miRNA:   3'- caCCGGGG--UCCGG------AGGAaGUCCUgGG- -5'
28523 3' -61.7 NC_005946.1 + 11005 0.68 0.454382
Target:  5'- -aGaGCCCCGGacugucCCUCUccCAGGACCCc -3'
miRNA:   3'- caC-CGGGGUCc-----GGAGGaaGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 22804 0.67 0.500157
Target:  5'- -aGGCCCCAcacccccGGCCacgCCggguUCAgGGACCa -3'
miRNA:   3'- caCCGGGGU-------CCGGa--GGa---AGU-CCUGGg -5'
28523 3' -61.7 NC_005946.1 + 22968 0.71 0.281319
Target:  5'- aUGGaaaacgcuuaCUCCAGGCacagggaggCCUUCAGGGCCCc -3'
miRNA:   3'- cACC----------GGGGUCCGga-------GGAAGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 26385 0.67 0.500157
Target:  5'- -cGGCCCgGGGCgUuguagugCCUggAGGGCCUg -3'
miRNA:   3'- caCCGGGgUCCGgA-------GGAagUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 28361 0.67 0.472802
Target:  5'- -gGGCUagCCAGGucCCUCC-UUAGGGCCg -3'
miRNA:   3'- caCCGG--GGUCC--GGAGGaAGUCCUGGg -5'
28523 3' -61.7 NC_005946.1 + 29540 0.71 0.301499
Target:  5'- -cGGUCCCagcgGGGCg-CCUggaucUCAGGGCCCg -3'
miRNA:   3'- caCCGGGG----UCCGgaGGA-----AGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 33127 0.7 0.330116
Target:  5'- -gGGCCugCCGGGCUUCUUUgAGGGCgCu -3'
miRNA:   3'- caCCGG--GGUCCGGAGGAAgUCCUGgG- -5'
28523 3' -61.7 NC_005946.1 + 36106 0.66 0.530145
Target:  5'- -cGGCCUU-GGCCUUUUcCAGGuCCCu -3'
miRNA:   3'- caCCGGGGuCCGGAGGAaGUCCuGGG- -5'
28523 3' -61.7 NC_005946.1 + 44447 0.68 0.44532
Target:  5'- cUGGCCgaCAGGaugCUCC-UCAGG-CCCg -3'
miRNA:   3'- cACCGGg-GUCCg--GAGGaAGUCCuGGG- -5'
28523 3' -61.7 NC_005946.1 + 49823 0.72 0.262225
Target:  5'- aUGGCCCuCAGGCuCUCCagggUgAGGgugGCCCu -3'
miRNA:   3'- cACCGGG-GUCCG-GAGGa---AgUCC---UGGG- -5'
28523 3' -61.7 NC_005946.1 + 50068 0.66 0.549837
Target:  5'- --uGCUCCA-GCCUCauggUCAGGGCCUu -3'
miRNA:   3'- cacCGGGGUcCGGAGga--AGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 57400 0.72 0.25009
Target:  5'- uUGGaCCCAG-UCUCCUgaccCAGGACCCu -3'
miRNA:   3'- cACCgGGGUCcGGAGGAa---GUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 59657 0.67 0.510716
Target:  5'- uUGGCCUCuGGUUggaCUUUUAGGGCCg -3'
miRNA:   3'- cACCGGGGuCCGGa--GGAAGUCCUGGg -5'
28523 3' -61.7 NC_005946.1 + 63602 0.68 0.410115
Target:  5'- cUGaCCCCugGGGCCcuuuggaCCcUCAGGACCCg -3'
miRNA:   3'- cACcGGGG--UCCGGa------GGaAGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 64055 0.71 0.274834
Target:  5'- -cGGCCCCuGGUCgCCcaUGGGACCCc -3'
miRNA:   3'- caCCGGGGuCCGGaGGaaGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 69905 0.7 0.337576
Target:  5'- aGUGGCCuCCAgGGCCUCggcguccaugUCAGGccucuuuacGCCCg -3'
miRNA:   3'- -CACCGG-GGU-CCGGAGga--------AGUCC---------UGGG- -5'
28523 3' -61.7 NC_005946.1 + 69952 0.73 0.216454
Target:  5'- -cGGCCCUugccacGGCCgCCgcCAGGGCCCu -3'
miRNA:   3'- caCCGGGGu-----CCGGaGGaaGUCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 70085 0.66 0.534064
Target:  5'- -gGGUCCCAcuacGGCCaggugccCCUUCcucccgucucccuugAGGACCCu -3'
miRNA:   3'- caCCGGGGU----CCGGa------GGAAG---------------UCCUGGG- -5'
28523 3' -61.7 NC_005946.1 + 70375 0.69 0.393174
Target:  5'- -aGGCCCUcgAGuCCUCCagcCAGGACCUc -3'
miRNA:   3'- caCCGGGG--UCcGGAGGaa-GUCCUGGG- -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.