miRNA display CGI


Results 1 - 20 of 24 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
21273 3' -55.7 NC_004778.3 + 81127 0.66 0.882217
Target:  5'- --uUUGCGaGCAccGGCCACCUGUUu -3'
miRNA:   3'- aacAGCGCgUGUaaCCGGUGGACAGc -5'
21273 3' -55.7 NC_004778.3 + 14514 0.66 0.877862
Target:  5'- cUGUCGCGCGCGUUGcagcgcauuucgaaCCGCCUcgagccGUCc -3'
miRNA:   3'- aACAGCGCGUGUAACc-------------GGUGGA------CAGc -5'
21273 3' -55.7 NC_004778.3 + 23698 0.66 0.851659
Target:  5'- -aG-CGUGCGCAgaaacUGGCCGaaaCUGUCa -3'
miRNA:   3'- aaCaGCGCGUGUa----ACCGGUg--GACAGc -5'
21273 3' -55.7 NC_004778.3 + 2552 0.67 0.835099
Target:  5'- -cGUCGgGCGCGggcacgucGGCCACCgcgCGg -3'
miRNA:   3'- aaCAGCgCGUGUaa------CCGGUGGacaGC- -5'
21273 3' -55.7 NC_004778.3 + 49530 0.67 0.826524
Target:  5'- gUUGUCGC-CAUuguUUGGCCACCaaaaGUUGc -3'
miRNA:   3'- -AACAGCGcGUGu--AACCGGUGGa---CAGC- -5'
21273 3' -55.7 NC_004778.3 + 9432 0.67 0.826524
Target:  5'- gUGgCGCGCACGUUGGacaCgGCC-GUCGu -3'
miRNA:   3'- aACaGCGCGUGUAACC---GgUGGaCAGC- -5'
21273 3' -55.7 NC_004778.3 + 64941 0.67 0.817763
Target:  5'- -cGUCGCccgaacaaGCAUAUUGGCCAUCgg-CGc -3'
miRNA:   3'- aaCAGCG--------CGUGUAACCGGUGGacaGC- -5'
21273 3' -55.7 NC_004778.3 + 21426 0.67 0.817763
Target:  5'- --cUCGCuGCGCAUcacgGGCCAUCUGcUCa -3'
miRNA:   3'- aacAGCG-CGUGUAa---CCGGUGGAC-AGc -5'
21273 3' -55.7 NC_004778.3 + 48870 0.67 0.812422
Target:  5'- -gGUCGCGCACGgccUUGGCggcacgcgcguaucgCACUcGUCGu -3'
miRNA:   3'- aaCAGCGCGUGU---AACCG---------------GUGGaCAGC- -5'
21273 3' -55.7 NC_004778.3 + 112212 0.67 0.808825
Target:  5'- --cUCGCGCAUAgcGGCCGCgCgGUCc -3'
miRNA:   3'- aacAGCGCGUGUaaCCGGUG-GaCAGc -5'
21273 3' -55.7 NC_004778.3 + 35073 0.67 0.799719
Target:  5'- -cGcCGCGCACAaUGGCCaugcGCUUG-CGg -3'
miRNA:   3'- aaCaGCGCGUGUaACCGG----UGGACaGC- -5'
21273 3' -55.7 NC_004778.3 + 116022 0.68 0.790453
Target:  5'- uUUGUCGCGUACAcggGGgUGCCUGg-- -3'
miRNA:   3'- -AACAGCGCGUGUaa-CCgGUGGACagc -5'
21273 3' -55.7 NC_004778.3 + 69955 0.68 0.762768
Target:  5'- gUGUCGCGaCACGcggucgcgaggcacGGCCGCCUcUCGg -3'
miRNA:   3'- aACAGCGC-GUGUaa------------CCGGUGGAcAGC- -5'
21273 3' -55.7 NC_004778.3 + 107675 0.68 0.750998
Target:  5'- gUGUCGCGCgacgaaaccuugcGCGUggaGGCCGCCacgcgcgGUCa -3'
miRNA:   3'- aACAGCGCG-------------UGUAa--CCGGUGGa------CAGc -5'
21273 3' -55.7 NC_004778.3 + 111282 0.69 0.732047
Target:  5'- cUGUCGCGCACGUuucUGaCCGCCUa--- -3'
miRNA:   3'- aACAGCGCGUGUA---ACcGGUGGAcagc -5'
21273 3' -55.7 NC_004778.3 + 27796 0.69 0.711744
Target:  5'- ---cCGCGCugcaccGCAUgcacgGGCCGCUUGUCGc -3'
miRNA:   3'- aacaGCGCG------UGUAa----CCGGUGGACAGC- -5'
21273 3' -55.7 NC_004778.3 + 49752 0.69 0.701481
Target:  5'- -aGUgCGCuCGCAc-GGCUACCUGUCGg -3'
miRNA:   3'- aaCA-GCGcGUGUaaCCGGUGGACAGC- -5'
21273 3' -55.7 NC_004778.3 + 85219 0.69 0.701481
Target:  5'- uUUGUUGCGCuGCAuUUGaGCCACCcGUUGu -3'
miRNA:   3'- -AACAGCGCG-UGU-AAC-CGGUGGaCAGC- -5'
21273 3' -55.7 NC_004778.3 + 45194 0.69 0.691156
Target:  5'- -cGUCgGCGCGCAacuguUUGGCCACCa---- -3'
miRNA:   3'- aaCAG-CGCGUGU-----AACCGGUGGacagc -5'
21273 3' -55.7 NC_004778.3 + 32270 0.7 0.659911
Target:  5'- ---cCGCGCACGcUGGCCggcggcGCCgUGUCGg -3'
miRNA:   3'- aacaGCGCGUGUaACCGG------UGG-ACAGC- -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.