miRNA display CGI


Results 1 - 19 of 19 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
7296 3' -55.3 NC_001900.1 + 755 0.66 0.681107
Target:  5'- cGCUG-GuGCGGCGCGuACUggcaGUCGCAa -3'
miRNA:   3'- -CGACaC-CGUCGUGU-UGGag--CAGCGUc -5'
7296 3' -55.3 NC_001900.1 + 24244 0.66 0.636606
Target:  5'- --aGUGGCAGCACugggUCUCGgagccgugaaCGCAGu -3'
miRNA:   3'- cgaCACCGUCGUGuu--GGAGCa---------GCGUC- -5'
7296 3' -55.3 NC_001900.1 + 47162 0.67 0.614288
Target:  5'- aCUGggaUGGCgacuucuucAGC-CGACCUaCGUCGCAGc -3'
miRNA:   3'- cGAC---ACCG---------UCGuGUUGGA-GCAGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 34951 0.67 0.603148
Target:  5'- aGCUGaagacguucGGCGGCACGGCCUCuGggcCGguGc -3'
miRNA:   3'- -CGACa--------CCGUCGUGUUGGAG-Ca--GCguC- -5'
7296 3' -55.3 NC_001900.1 + 18188 0.67 0.592033
Target:  5'- aGCgGUGuGCAGCAggucucCGACUUCGUCGgaCAGc -3'
miRNA:   3'- -CGaCAC-CGUCGU------GUUGGAGCAGC--GUC- -5'
7296 3' -55.3 NC_001900.1 + 29439 0.68 0.54801
Target:  5'- aGCg--GGCAGagacgcgACGAUCUCGUCGUGGa -3'
miRNA:   3'- -CGacaCCGUCg------UGUUGGAGCAGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 23133 0.68 0.54801
Target:  5'- cGCgGUGucccGCAGCcacuCGAUCUCGUCGCuGa -3'
miRNA:   3'- -CGaCAC----CGUCGu---GUUGGAGCAGCGuC- -5'
7296 3' -55.3 NC_001900.1 + 32806 0.7 0.443597
Target:  5'- aGCUG-GGCAgGCAcCGACUaCGUCGguGa -3'
miRNA:   3'- -CGACaCCGU-CGU-GUUGGaGCAGCguC- -5'
7296 3' -55.3 NC_001900.1 + 23627 0.7 0.433762
Target:  5'- --gGUcGGUGGCGCgAACCUCG-CGCAGu -3'
miRNA:   3'- cgaCA-CCGUCGUG-UUGGAGCaGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 48904 0.71 0.368657
Target:  5'- aGCUGaGGcCGGCAUucGCaUCGUCGCAGg -3'
miRNA:   3'- -CGACaCC-GUCGUGu-UGgAGCAGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 44783 0.72 0.326431
Target:  5'- aGgUGUGGCAGCggccaGCGGCCUggcUGcCGCAGg -3'
miRNA:   3'- -CgACACCGUCG-----UGUUGGA---GCaGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 9748 0.72 0.310575
Target:  5'- aGC-GUGGCAGcCugGAUCUCGUUGCc- -3'
miRNA:   3'- -CGaCACCGUC-GugUUGGAGCAGCGuc -5'
7296 3' -55.3 NC_001900.1 + 2607 0.73 0.287901
Target:  5'- uGCcGUGGCAGaCACGGCagaUCGcUUGCAGg -3'
miRNA:   3'- -CGaCACCGUC-GUGUUGg--AGC-AGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 10437 0.73 0.273521
Target:  5'- aGCUucGUGGCGGCGuCAGCCU--UCGCGGc -3'
miRNA:   3'- -CGA--CACCGUCGU-GUUGGAgcAGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 28393 0.74 0.257703
Target:  5'- aGCUGUGGCucGGCucauuccaccgggaGCAggacgcggACUUCGUCGCGGg -3'
miRNA:   3'- -CGACACCG--UCG--------------UGU--------UGGAGCAGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 31322 0.74 0.255695
Target:  5'- ---cUGGCAGCACAACCugcuggcugcccgguUCGUCGCuGa -3'
miRNA:   3'- cgacACCGUCGUGUUGG---------------AGCAGCGuC- -5'
7296 3' -55.3 NC_001900.1 + 9436 0.75 0.221724
Target:  5'- aGCUGUGGCAGUgguggcaggcgaACAACCUCGacaUCG-AGg -3'
miRNA:   3'- -CGACACCGUCG------------UGUUGGAGC---AGCgUC- -5'
7296 3' -55.3 NC_001900.1 + 20141 0.8 0.101639
Target:  5'- aGCUGcgcgacGGCGacuuccgucuGCGCGGCCUCGUCGCGGg -3'
miRNA:   3'- -CGACa-----CCGU----------CGUGUUGGAGCAGCGUC- -5'
7296 3' -55.3 NC_001900.1 + 12922 1.11 0.000616
Target:  5'- cGCUGUGGCAGCACAACCUCGUCGCAGu -3'
miRNA:   3'- -CGACACCGUCGUGUUGGAGCAGCGUC- -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.