miRNA display CGI


Results 1 - 20 of 70 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
28270 3' -40.4 NC_005902.1 + 153131 0.69 1
Target:  5'- uGUUAAucucaGCaCCUAAAGCUU-UAUAGGUa -3'
miRNA:   3'- uCAAUU-----UG-GGAUUUCGAAuGUAUUCA- -5'
28270 3' -40.4 NC_005902.1 + 78630 0.66 1
Target:  5'- -uUUAAAUuuUAAGGCUUAUAcAAGUa -3'
miRNA:   3'- ucAAUUUGggAUUUCGAAUGUaUUCA- -5'
28270 3' -40.4 NC_005902.1 + 100280 0.71 1
Target:  5'- -uUUAAAUCCUAAGGCUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 68999 0.71 1
Target:  5'- -uUUAAAUCCUAAGGCUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 139746 0.71 1
Target:  5'- -uUUAAAUCCUAAGGCUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 184520 0.71 1
Target:  5'- -uUUAAAUCCUAAGGCUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 148149 0.7 1
Target:  5'- --cUAAAUCCUAAAGCU---GUAAGUg -3'
miRNA:   3'- ucaAUUUGGGAUUUCGAaugUAUUCA- -5'
28270 3' -40.4 NC_005902.1 + 120376 0.71 1
Target:  5'- -uUUAAAUCCUAAGGCUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 152918 0.71 1
Target:  5'- -uUUAAAUCCUAAGGCUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 107376 0.7 1
Target:  5'- -uUUAAAUCCUAGGGCUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 31283 0.7 1
Target:  5'- aGGUUAAAUCUUAAAGUUUAUAUu--- -3'
miRNA:   3'- -UCAAUUUGGGAUUUCGAAUGUAuuca -5'
28270 3' -40.4 NC_005902.1 + 103889 0.66 1
Target:  5'- -uUUAAAUCCUAAAGUUUAUAc---- -3'
miRNA:   3'- ucAAUUUGGGAUUUCGAAUGUauuca -5'
28270 3' -40.4 NC_005902.1 + 31221 0.69 1
Target:  5'- gAGUUAAAUCCUAAAGaguugucgaugaugcUUUGCAUAAu- -3'
miRNA:   3'- -UCAAUUUGGGAUUUC---------------GAAUGUAUUca -5'
28270 3' -40.4 NC_005902.1 + 114376 0.68 1
Target:  5'- gAGUUAaggauuAACCUuucaaaacaUAAAGCUUAUAUAAGc -3'
miRNA:   3'- -UCAAU------UUGGG---------AUUUCGAAUGUAUUCa -5'
28270 3' -40.4 NC_005902.1 + 17685 0.68 1
Target:  5'- --aUAAGCCUUAGGGUUUAaaggAUGAGUa -3'
miRNA:   3'- ucaAUUUGGGAUUUCGAAUg---UAUUCA- -5'
28270 3' -40.4 NC_005902.1 + 88823 0.67 1
Target:  5'- aGGaUUAAAUCCUAAAGUUUAUAUu--- -3'
miRNA:   3'- -UC-AAUUUGGGAUUUCGAAUGUAuuca -5'
28270 3' -40.4 NC_005902.1 + 116677 0.67 1
Target:  5'- ----uAACaCCUGAAGCUUAUAUAGu- -3'
miRNA:   3'- ucaauUUG-GGAUUUCGAAUGUAUUca -5'
28270 3' -40.4 NC_005902.1 + 37027 0.67 1
Target:  5'- -aUUAAAaUCUAAAGCUUAUGUAAGc -3'
miRNA:   3'- ucAAUUUgGGAUUUCGAAUGUAUUCa -5'
28270 3' -40.4 NC_005902.1 + 115192 0.67 1
Target:  5'- gGGUUAAACCC-AAAGUacACAU-GGUa -3'
miRNA:   3'- -UCAAUUUGGGaUUUCGaaUGUAuUCA- -5'
28270 3' -40.4 NC_005902.1 + 92637 0.66 1
Target:  5'- gGGaUUAAAUCCUAAAGUUUAUAc---- -3'
miRNA:   3'- -UC-AAUUUGGGAUUUCGAAUGUauuca -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.