miRNA display CGI


Results 1 - 20 of 21 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
11919 5' -62.2 NC_003278.1 + 13187 0.66 0.294174
Target:  5'- gAGGCAuCGCcgaCGCGaCCgUCGGcGGCGc -3'
miRNA:   3'- -UCCGU-GCGug-GCGCaGG-AGCCaCCGC- -5'
11919 5' -62.2 NC_003278.1 + 21644 0.66 0.28701
Target:  5'- uGGGCAagaGCGCCgGCG-CCaUCGGUgcccuggugcucGGCGc -3'
miRNA:   3'- -UCCGUg--CGUGG-CGCaGG-AGCCA------------CCGC- -5'
11919 5' -62.2 NC_003278.1 + 26610 0.66 0.279984
Target:  5'- --cCugGCGCCGCGUUCUaGGagcgGGCGu -3'
miRNA:   3'- uccGugCGUGGCGCAGGAgCCa---CCGC- -5'
11919 5' -62.2 NC_003278.1 + 5750 0.66 0.279984
Target:  5'- cGGGUugGCGgCGCGg--UUGGUGGUa -3'
miRNA:   3'- -UCCGugCGUgGCGCaggAGCCACCGc -5'
11919 5' -62.2 NC_003278.1 + 19044 0.66 0.273096
Target:  5'- cAGGCAaggagGUcgGCCGgGUCCaugcCGGUGGCc -3'
miRNA:   3'- -UCCGUg----CG--UGGCgCAGGa---GCCACCGc -5'
11919 5' -62.2 NC_003278.1 + 21213 0.66 0.259729
Target:  5'- cGGCcugAUGUACCGCGcCUUCGccGGCGu -3'
miRNA:   3'- uCCG---UGCGUGGCGCaGGAGCcaCCGC- -5'
11919 5' -62.2 NC_003278.1 + 9422 0.67 0.253247
Target:  5'- aAGGCucACGCGCUG-G-CCUCGGcgcaguUGGCGu -3'
miRNA:   3'- -UCCG--UGCGUGGCgCaGGAGCC------ACCGC- -5'
11919 5' -62.2 NC_003278.1 + 26905 0.67 0.2469
Target:  5'- cGGUcgACcuCACCGCG-CCUgauggCGGUGGCGa -3'
miRNA:   3'- uCCG--UGc-GUGGCGCaGGA-----GCCACCGC- -5'
11919 5' -62.2 NC_003278.1 + 5891 0.67 0.2469
Target:  5'- uGGCAC-CGCCGUGacccgggCCU-GGUGGUGa -3'
miRNA:   3'- uCCGUGcGUGGCGCa------GGAgCCACCGC- -5'
11919 5' -62.2 NC_003278.1 + 28274 0.67 0.238846
Target:  5'- cAGGUACGC-CCGgGccgaggcggcggguUCCuugUCGGUGGCc -3'
miRNA:   3'- -UCCGUGCGuGGCgC--------------AGG---AGCCACCGc -5'
11919 5' -62.2 NC_003278.1 + 17317 0.67 0.2346
Target:  5'- uGGGCgugGUACCGCGcaUCCUCGGcgugccgGGCc -3'
miRNA:   3'- -UCCGug-CGUGGCGC--AGGAGCCa------CCGc -5'
11919 5' -62.2 NC_003278.1 + 17112 0.67 0.2346
Target:  5'- aAGGCGgugGCGuCgGCGUCUUCGGcGGUGg -3'
miRNA:   3'- -UCCGUg--CGU-GgCGCAGGAGCCaCCGC- -5'
11919 5' -62.2 NC_003278.1 + 13854 0.67 0.228646
Target:  5'- cGGCuCGCugACCGaCaUCCUCGaGUGGUGg -3'
miRNA:   3'- uCCGuGCG--UGGC-GcAGGAGC-CACCGC- -5'
11919 5' -62.2 NC_003278.1 + 20778 0.68 0.21712
Target:  5'- aGGGCAucgucaucacCGuCGCCGCGUUUUCGGcgcugaUGGCu -3'
miRNA:   3'- -UCCGU----------GC-GUGGCGCAGGAGCC------ACCGc -5'
11919 5' -62.2 NC_003278.1 + 28421 0.68 0.211546
Target:  5'- cGGGCGacagccCGCGCgGCGUCU--GGUGGUGc -3'
miRNA:   3'- -UCCGU------GCGUGgCGCAGGagCCACCGC- -5'
11919 5' -62.2 NC_003278.1 + 3009 0.68 0.195558
Target:  5'- cGGGCGa-CACCGCGggUCUgguggUGGUGGCGc -3'
miRNA:   3'- -UCCGUgcGUGGCGC--AGGa----GCCACCGC- -5'
11919 5' -62.2 NC_003278.1 + 26661 0.68 0.195558
Target:  5'- cGGCgGCGCAuUCGCGUCCgccagGGUaGGCGc -3'
miRNA:   3'- uCCG-UGCGU-GGCGCAGGag---CCA-CCGC- -5'
11919 5' -62.2 NC_003278.1 + 22282 0.69 0.168529
Target:  5'- cGGC-CGCACCGaucugcucggcucgGUCCUCGGUaccgccGGCa -3'
miRNA:   3'- uCCGuGCGUGGCg-------------CAGGAGCCA------CCGc -5'
11919 5' -62.2 NC_003278.1 + 30249 0.7 0.141776
Target:  5'- uGGUcgACGCGCUGCG-CCU-GGUGGUGc -3'
miRNA:   3'- uCCG--UGCGUGGCGCaGGAgCCACCGC- -5'
11919 5' -62.2 NC_003278.1 + 14639 0.7 0.137964
Target:  5'- cGGCAaccuuCGCCGUccccaGUCCUgGGUGGCGu -3'
miRNA:   3'- uCCGUgc---GUGGCG-----CAGGAgCCACCGC- -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.