miRNA display CGI


Results 1 - 20 of 36 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
18402 3' -56.8 NC_004681.1 + 10858 0.66 0.740147
Target:  5'- cGaCCUCUCCCGCGguucaCGCuGGCcugauugcgaAAGCu -3'
miRNA:   3'- aCaGGAGAGGGUGCag---GCG-UCG----------UUCG- -5'
18402 3' -56.8 NC_004681.1 + 8819 0.66 0.740147
Target:  5'- gGUCCcggCUUCaGCGaCCGCGGC-GGCg -3'
miRNA:   3'- aCAGGa--GAGGgUGCaGGCGUCGuUCG- -5'
18402 3' -56.8 NC_004681.1 + 57327 0.66 0.719619
Target:  5'- aGUCCaCUaccgccgcaagCUCGCGUaCCGCGGgGAGCc -3'
miRNA:   3'- aCAGGaGA-----------GGGUGCA-GGCGUCgUUCG- -5'
18402 3' -56.8 NC_004681.1 + 71590 0.66 0.719619
Target:  5'- aGUCCUCUgCaAUGUCCuCGcGCGAGUa -3'
miRNA:   3'- aCAGGAGAgGgUGCAGGcGU-CGUUCG- -5'
18402 3' -56.8 NC_004681.1 + 19708 0.66 0.719619
Target:  5'- cGUCaUCgaCCACG-CCGCAGCGcGCc -3'
miRNA:   3'- aCAGgAGagGGUGCaGGCGUCGUuCG- -5'
18402 3' -56.8 NC_004681.1 + 75600 0.66 0.709227
Target:  5'- aG-CCUCUggcguaugagCUCGCGUCUGCugAGCGGGUa -3'
miRNA:   3'- aCaGGAGA----------GGGUGCAGGCG--UCGUUCG- -5'
18402 3' -56.8 NC_004681.1 + 26128 0.66 0.698763
Target:  5'- aGUCUgaUCCUgaagGCgGUgCGCGGCAAGCa -3'
miRNA:   3'- aCAGGagAGGG----UG-CAgGCGUCGUUCG- -5'
18402 3' -56.8 NC_004681.1 + 26213 0.66 0.698763
Target:  5'- cGUCCUggCCCGCcaCgGCGGCGAuGCc -3'
miRNA:   3'- aCAGGAgaGGGUGcaGgCGUCGUU-CG- -5'
18402 3' -56.8 NC_004681.1 + 8388 0.66 0.688239
Target:  5'- cGUCCUUggCgGCGUCCGCGcCAccgaGGCu -3'
miRNA:   3'- aCAGGAGagGgUGCAGGCGUcGU----UCG- -5'
18402 3' -56.8 NC_004681.1 + 24831 0.67 0.677665
Target:  5'- cGaCCUCaUCgGCGUCgGCGGCGcgGGCg -3'
miRNA:   3'- aCaGGAGaGGgUGCAGgCGUCGU--UCG- -5'
18402 3' -56.8 NC_004681.1 + 37725 0.67 0.677665
Target:  5'- cGUCgCUCUCCUGUGUgCGCAGCu--- -3'
miRNA:   3'- aCAG-GAGAGGGUGCAgGCGUCGuucg -5'
18402 3' -56.8 NC_004681.1 + 35537 0.67 0.667049
Target:  5'- aUGUCgaacCCCACGUCUGCGccguuGUAGGCg -3'
miRNA:   3'- -ACAGgagaGGGUGCAGGCGU-----CGUUCG- -5'
18402 3' -56.8 NC_004681.1 + 22841 0.67 0.656403
Target:  5'- aUGaUCCUCaucCCCGCGUUCGaCAGCGc-- -3'
miRNA:   3'- -AC-AGGAGa--GGGUGCAGGC-GUCGUucg -5'
18402 3' -56.8 NC_004681.1 + 17470 0.67 0.645736
Target:  5'- gGUCCUCgaCCGCG-CUGgAGCAgucGGCg -3'
miRNA:   3'- aCAGGAGagGGUGCaGGCgUCGU---UCG- -5'
18402 3' -56.8 NC_004681.1 + 30659 0.67 0.645736
Target:  5'- -----aUUCCCGCGgacgCCGCGGuCAAGCu -3'
miRNA:   3'- acaggaGAGGGUGCa---GGCGUC-GUUCG- -5'
18402 3' -56.8 NC_004681.1 + 54289 0.67 0.635056
Target:  5'- gGUCCUCgCCCACcUCaagaGCGGCAc-- -3'
miRNA:   3'- aCAGGAGaGGGUGcAGg---CGUCGUucg -5'
18402 3' -56.8 NC_004681.1 + 51005 0.67 0.624375
Target:  5'- aGggCUCUCCCGUGUCCGaCucgaguauuGGCAGGCc -3'
miRNA:   3'- aCagGAGAGGGUGCAGGC-G---------UCGUUCG- -5'
18402 3' -56.8 NC_004681.1 + 70830 0.68 0.613699
Target:  5'- gUGUCacggUCUCCacgcucaGCGgCCGCAGCAuGCc -3'
miRNA:   3'- -ACAGg---AGAGGg------UGCaGGCGUCGUuCG- -5'
18402 3' -56.8 NC_004681.1 + 70363 0.68 0.613699
Target:  5'- aGUCCUCcgUgCCACaGUgCGC-GCGAGCc -3'
miRNA:   3'- aCAGGAG--AgGGUG-CAgGCGuCGUUCG- -5'
18402 3' -56.8 NC_004681.1 + 64909 0.68 0.603039
Target:  5'- --aUCUCUCCCGCGgcgcCCGCcuggAGCAcgagguGGCg -3'
miRNA:   3'- acaGGAGAGGGUGCa---GGCG----UCGU------UCG- -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.