miRNA display CGI


Results 1 - 20 of 50 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
24958 3' -55.5 NC_005284.1 + 12467 0.66 0.738378
Target:  5'- uCGAaccccGCGAGCCuGAUCGCgGUUGgggaguuCCGAAa -3'
miRNA:   3'- -GCU-----UGCUUGG-CUAGCGgCAGC-------GGCUU- -5'
24958 3' -55.5 NC_005284.1 + 35527 0.67 0.653806
Target:  5'- aGAGCGAuucCCGuGUCGCgGUCgcgaggucgaGCCGAAg -3'
miRNA:   3'- gCUUGCUu--GGC-UAGCGgCAG----------CGGCUU- -5'
24958 3' -55.5 NC_005284.1 + 30805 0.67 0.653806
Target:  5'- cCGGAuCGucCCGAUCGCgGUCGUaggCGAGa -3'
miRNA:   3'- -GCUU-GCuuGGCUAGCGgCAGCG---GCUU- -5'
24958 3' -55.5 NC_005284.1 + 53841 0.67 0.653806
Target:  5'- uCGAACGGGgUGAUCGCC--CGCCa-- -3'
miRNA:   3'- -GCUUGCUUgGCUAGCGGcaGCGGcuu -5'
24958 3' -55.5 NC_005284.1 + 50289 0.67 0.664687
Target:  5'- gCGGAUcAAgCGGcCGaCCGUCGCCGAGg -3'
miRNA:   3'- -GCUUGcUUgGCUaGC-GGCAGCGGCUU- -5'
24958 3' -55.5 NC_005284.1 + 52613 0.67 0.675538
Target:  5'- aGAgcGCGGGCUGAauUUGCCGcCGCaCGGAu -3'
miRNA:   3'- gCU--UGCUUGGCU--AGCGGCaGCG-GCUU- -5'
24958 3' -55.5 NC_005284.1 + 42265 0.67 0.675538
Target:  5'- uGGGCGAgugugcGCCGGUCGUCGagGUCGu- -3'
miRNA:   3'- gCUUGCU------UGGCUAGCGGCagCGGCuu -5'
24958 3' -55.5 NC_005284.1 + 11698 0.66 0.707806
Target:  5'- uGAGCGA--CGAguuUCGCCGUCGaCGGGa -3'
miRNA:   3'- gCUUGCUugGCU---AGCGGCAGCgGCUU- -5'
24958 3' -55.5 NC_005284.1 + 30429 0.66 0.707806
Target:  5'- gCGAcgGCGAgguGCUGuuUCGCgaGUCGCCGAu -3'
miRNA:   3'- -GCU--UGCU---UGGCu-AGCGg-CAGCGGCUu -5'
24958 3' -55.5 NC_005284.1 + 49356 0.67 0.631996
Target:  5'- cCGAACu-AUCGGUCGCagcuUCGCCGAGc -3'
miRNA:   3'- -GCUUGcuUGGCUAGCGgc--AGCGGCUU- -5'
24958 3' -55.5 NC_005284.1 + 25515 0.68 0.621086
Target:  5'- cCGGugGAAUCGGagCgGCCGUCGUCGu- -3'
miRNA:   3'- -GCUugCUUGGCUa-G-CGGCAGCGGCuu -5'
24958 3' -55.5 NC_005284.1 + 18660 0.68 0.599303
Target:  5'- gCGAACGGAgauCUGGUacaGCCGcaCGCCGAAu -3'
miRNA:   3'- -GCUUGCUU---GGCUAg--CGGCa-GCGGCUU- -5'
24958 3' -55.5 NC_005284.1 + 17845 0.75 0.249954
Target:  5'- gGGAC-AGgUGAUCGCCGUUGCCGAc -3'
miRNA:   3'- gCUUGcUUgGCUAGCGGCAGCGGCUu -5'
24958 3' -55.5 NC_005284.1 + 49664 0.74 0.298118
Target:  5'- uCGAGCGAG-CGGUCGaguaCGUUGCCGAc -3'
miRNA:   3'- -GCUUGCUUgGCUAGCg---GCAGCGGCUu -5'
24958 3' -55.5 NC_005284.1 + 13298 0.71 0.433899
Target:  5'- uCGGACGGugUGAagaacUgGCaCGUCGCCGAGc -3'
miRNA:   3'- -GCUUGCUugGCU-----AgCG-GCAGCGGCUU- -5'
24958 3' -55.5 NC_005284.1 + 16301 0.71 0.443514
Target:  5'- aGGGCGAGCCGGU-GCCGcUCGUCa-- -3'
miRNA:   3'- gCUUGCUUGGCUAgCGGC-AGCGGcuu -5'
24958 3' -55.5 NC_005284.1 + 10961 0.7 0.463095
Target:  5'- cCGGACGAGCgGA-CGCaucaaGUCGCuCGAAa -3'
miRNA:   3'- -GCUUGCUUGgCUaGCGg----CAGCG-GCUU- -5'
24958 3' -55.5 NC_005284.1 + 47264 0.7 0.463095
Target:  5'- aCGGGCGAgaACCucguGAUCgacgGCCGUCGCCGc- -3'
miRNA:   3'- -GCUUGCU--UGG----CUAG----CGGCAGCGGCuu -5'
24958 3' -55.5 NC_005284.1 + 7709 0.7 0.48312
Target:  5'- uGAGCGGugcGCCGAagcucgUGCCGcCGCCGGc -3'
miRNA:   3'- gCUUGCU---UGGCUa-----GCGGCaGCGGCUu -5'
24958 3' -55.5 NC_005284.1 + 21642 0.69 0.534875
Target:  5'- cCGAGCagcGugCGAUCGCCG-CGCaCGAu -3'
miRNA:   3'- -GCUUGc--UugGCUAGCGGCaGCG-GCUu -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.