miRNA display CGI


Results 1 - 18 of 18 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
28524 3' -56.8 NC_005946.1 + 58012 0.66 0.822688
Target:  5'- uGGCccucacccucAGGGaGAUGUAGGCCUcgCCg -3'
miRNA:   3'- uCCGcu--------UCCC-CUGCAUCCGGAaaGGg -5'
28524 3' -56.8 NC_005946.1 + 10540 0.66 0.805015
Target:  5'- cAGGCccAGGGGcuuCGggggAGGCaggUUCCCc -3'
miRNA:   3'- -UCCGcuUCCCCu--GCa---UCCGga-AAGGG- -5'
28524 3' -56.8 NC_005946.1 + 22904 0.66 0.805015
Target:  5'- cGGCGAGGGGaGuccACGgcaugGGGuCCggagCCCa -3'
miRNA:   3'- uCCGCUUCCC-C---UGCa----UCC-GGaaa-GGG- -5'
28524 3' -56.8 NC_005946.1 + 58164 0.67 0.764925
Target:  5'- gAGGCGucagggucacucacGAGGagguccgugaGGACGUAGGgCCUgaaccucaUCCCg -3'
miRNA:   3'- -UCCGC--------------UUCC----------CCUGCAUCC-GGAa-------AGGG- -5'
28524 3' -56.8 NC_005946.1 + 61276 0.67 0.758167
Target:  5'- gAGuCGAAGGGGAuccugugcuucUGUAGGuaCCUggCCCa -3'
miRNA:   3'- -UCcGCUUCCCCU-----------GCAUCC--GGAaaGGG- -5'
28524 3' -56.8 NC_005946.1 + 88110 0.67 0.742512
Target:  5'- -cGCuGGAGGGGAUGUaaaugcuuacucuguGuGGCCUUaCCCg -3'
miRNA:   3'- ucCG-CUUCCCCUGCA---------------U-CCGGAAaGGG- -5'
28524 3' -56.8 NC_005946.1 + 46252 0.67 0.728604
Target:  5'- cGGGCcu-GGGGACGUagcccaGGGCCaccgcUCCUc -3'
miRNA:   3'- -UCCGcuuCCCCUGCA------UCCGGaa---AGGG- -5'
28524 3' -56.8 NC_005946.1 + 93156 0.67 0.724598
Target:  5'- aGGGCGGAGGGaGGC--AGGCUggagcugucugcUCCCu -3'
miRNA:   3'- -UCCGCUUCCC-CUGcaUCCGGaa----------AGGG- -5'
28524 3' -56.8 NC_005946.1 + 38198 0.68 0.704384
Target:  5'- cGGGCuGAG-GGACGUcGGGCCcccucucgaccugUUCCCa -3'
miRNA:   3'- -UCCGcUUCcCCUGCA-UCCGGa------------AAGGG- -5'
28524 3' -56.8 NC_005946.1 + 33057 0.68 0.688028
Target:  5'- uGGCcGAGGGGGCG-GGGUUc-UCCCu -3'
miRNA:   3'- uCCGcUUCCCCUGCaUCCGGaaAGGG- -5'
28524 3' -56.8 NC_005946.1 + 32023 0.68 0.677742
Target:  5'- aGGGaaaGGAGaGGGugGUGGuGCCUcacaucaggCCCg -3'
miRNA:   3'- -UCCg--CUUC-CCCugCAUC-CGGAaa-------GGG- -5'
28524 3' -56.8 NC_005946.1 + 6218 0.69 0.636298
Target:  5'- cGGCacAGGacuucGAUGUGGGCCUcUCCCu -3'
miRNA:   3'- uCCGcuUCCc----CUGCAUCCGGAaAGGG- -5'
28524 3' -56.8 NC_005946.1 + 37290 0.69 0.615521
Target:  5'- cAGGCGAGGGuuccacGACGUGGGCg---CCUa -3'
miRNA:   3'- -UCCGCUUCCc-----CUGCAUCCGgaaaGGG- -5'
28524 3' -56.8 NC_005946.1 + 13321 0.69 0.615521
Target:  5'- uGGCGucgacGGGGACGUuuacCUUUUCCCa -3'
miRNA:   3'- uCCGCuu---CCCCUGCAucc-GGAAAGGG- -5'
28524 3' -56.8 NC_005946.1 + 49032 0.7 0.563937
Target:  5'- gGGGCGAAGaGGACGgGGGCCcggaUCUa -3'
miRNA:   3'- -UCCGCUUCcCCUGCaUCCGGaa--AGGg -5'
28524 3' -56.8 NC_005946.1 + 38380 0.71 0.539558
Target:  5'- cAGGCGAAGccggccuugaccaGGACGUcugAGGCCUUUCg- -3'
miRNA:   3'- -UCCGCUUCc------------CCUGCA---UCCGGAAAGgg -5'
28524 3' -56.8 NC_005946.1 + 74608 0.73 0.428153
Target:  5'- -cGUGAGGagaGGGACGUAGGUCUccgCCCu -3'
miRNA:   3'- ucCGCUUC---CCCUGCAUCCGGAaa-GGG- -5'
28524 3' -56.8 NC_005946.1 + 22028 0.76 0.285473
Target:  5'- aGGGUGAGGGGGGcCGUGuGGCCcgUCUa -3'
miRNA:   3'- -UCCGCUUCCCCU-GCAU-CCGGaaAGGg -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.