miRNA display CGI


Results 1 - 20 of 20 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
10838 3' -47.5 NC_002794.1 + 52642 0.66 0.999946
Target:  5'- gAACGGGaGCCGGAG-CGGCg------- -3'
miRNA:   3'- -UUGCUC-CGGCCUUaGCUGauaauuuc -5'
10838 3' -47.5 NC_002794.1 + 124102 0.66 0.999944
Target:  5'- cGCGAaaaguagGGCCGGG-UCGACUcg-AGAGc -3'
miRNA:   3'- uUGCU-------CCGGCCUuAGCUGAuaaUUUC- -5'
10838 3' -47.5 NC_002794.1 + 44305 0.66 0.999905
Target:  5'- cGGCGAGGCgGGGAgCGACc------- -3'
miRNA:   3'- -UUGCUCCGgCCUUaGCUGauaauuuc -5'
10838 3' -47.5 NC_002794.1 + 121031 0.66 0.999905
Target:  5'- --aGAGGCCGGAGagCGGCg------- -3'
miRNA:   3'- uugCUCCGGCCUUa-GCUGauaauuuc -5'
10838 3' -47.5 NC_002794.1 + 21522 0.66 0.999839
Target:  5'- gGACG-GGCggauCGGGAUCGGCUAg----- -3'
miRNA:   3'- -UUGCuCCG----GCCUUAGCUGAUaauuuc -5'
10838 3' -47.5 NC_002794.1 + 66861 0.67 0.999736
Target:  5'- cGGCGAGGCCGcGGcgugCGGCUGa----- -3'
miRNA:   3'- -UUGCUCCGGC-CUua--GCUGAUaauuuc -5'
10838 3' -47.5 NC_002794.1 + 114002 0.67 0.999736
Target:  5'- -uCGAGgcGCCGGAGgagCGACUcgUAcAGg -3'
miRNA:   3'- uuGCUC--CGGCCUUa--GCUGAuaAUuUC- -5'
10838 3' -47.5 NC_002794.1 + 99779 0.67 0.999736
Target:  5'- cGCGGuGCCGGcGUCGACUAc----- -3'
miRNA:   3'- uUGCUcCGGCCuUAGCUGAUaauuuc -5'
10838 3' -47.5 NC_002794.1 + 145073 0.67 0.999578
Target:  5'- cGGCGGGGCCGGAcagcaCGG-UGUUGAAc -3'
miRNA:   3'- -UUGCUCCGGCCUua---GCUgAUAAUUUc -5'
10838 3' -47.5 NC_002794.1 + 148149 0.67 0.999578
Target:  5'- gGGCGAGGgCGGucgCGACg---GAAGg -3'
miRNA:   3'- -UUGCUCCgGCCuuaGCUGauaaUUUC- -5'
10838 3' -47.5 NC_002794.1 + 14619 0.68 0.999472
Target:  5'- cGACGGGGCCGGAGaCGGg-------- -3'
miRNA:   3'- -UUGCUCCGGCCUUaGCUgauaauuuc -5'
10838 3' -47.5 NC_002794.1 + 112108 0.68 0.999344
Target:  5'- aGGCGcGGCCGGGA-CGACggcgcggGGAGg -3'
miRNA:   3'- -UUGCuCCGGCCUUaGCUGauaa---UUUC- -5'
10838 3' -47.5 NC_002794.1 + 174680 0.68 0.999005
Target:  5'- gAACGAuGUCGGAAUCGACg------- -3'
miRNA:   3'- -UUGCUcCGGCCUUAGCUGauaauuuc -5'
10838 3' -47.5 NC_002794.1 + 89519 0.69 0.998526
Target:  5'- cGCGuAGGCCaGAGUCGGCg---GAGGc -3'
miRNA:   3'- uUGC-UCCGGcCUUAGCUGauaaUUUC- -5'
10838 3' -47.5 NC_002794.1 + 51846 0.69 0.998526
Target:  5'- gGACGAGaGCCGGGAagaauUCGACa------- -3'
miRNA:   3'- -UUGCUC-CGGCCUU-----AGCUGauaauuuc -5'
10838 3' -47.5 NC_002794.1 + 26650 0.7 0.996422
Target:  5'- gGACGGcGGCCGGcucGUCGGCggggUGGAGc -3'
miRNA:   3'- -UUGCU-CCGGCCu--UAGCUGaua-AUUUC- -5'
10838 3' -47.5 NC_002794.1 + 177952 0.7 0.995792
Target:  5'- cGGCGAGGUCGGuggacgguGGUgGACgGUUGGAGg -3'
miRNA:   3'- -UUGCUCCGGCC--------UUAgCUGaUAAUUUC- -5'
10838 3' -47.5 NC_002794.1 + 153298 0.7 0.995792
Target:  5'- aGACGcAGGCCGGGGagCGGCUGg----- -3'
miRNA:   3'- -UUGC-UCCGGCCUUa-GCUGAUaauuuc -5'
10838 3' -47.5 NC_002794.1 + 691 0.8 0.729024
Target:  5'- -uCGcGGCCGGAGUCGGCUGUUuuuGGg -3'
miRNA:   3'- uuGCuCCGGCCUUAGCUGAUAAuu-UC- -5'
10838 3' -47.5 NC_002794.1 + 56484 1.08 0.025628
Target:  5'- aAACGAGGCCGGAAUCGACUAUUAAAGg -3'
miRNA:   3'- -UUGCUCCGGCCUUAGCUGAUAAUUUC- -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.