miRNA display CGI


Results 1 - 20 of 40 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
23595 3' -57.3 NC_005261.1 + 83573 0.66 0.856236
Target:  5'- cGugCCCgcgGCGcCCGcGGccgCCAGcAGCGCg -3'
miRNA:   3'- -CugGGGa--UGCaGGC-CCa--GGUC-UUGUG- -5'
23595 3' -57.3 NC_005261.1 + 100299 0.66 0.848411
Target:  5'- aGGCCCCaaaguccGCGUCgCGGGcgcgcucgaucUCCAG-GCGCa -3'
miRNA:   3'- -CUGGGGa------UGCAG-GCCC-----------AGGUCuUGUG- -5'
23595 3' -57.3 NC_005261.1 + 57861 0.66 0.840391
Target:  5'- aGGCCUCgGCGcUCGGGUCgGGAagucggccgGCACg -3'
miRNA:   3'- -CUGGGGaUGCaGGCCCAGgUCU---------UGUG- -5'
23595 3' -57.3 NC_005261.1 + 107342 0.66 0.839579
Target:  5'- cGGCCuccgcguugcggaCCUGCGUCgucgUGGGcgCCGGGGCGCc -3'
miRNA:   3'- -CUGG-------------GGAUGCAG----GCCCa-GGUCUUGUG- -5'
23595 3' -57.3 NC_005261.1 + 121098 0.66 0.832184
Target:  5'- cGCCUCcaggcCGUgCGGGUCCucuAGGGCGCg -3'
miRNA:   3'- cUGGGGau---GCAgGCCCAGG---UCUUGUG- -5'
23595 3' -57.3 NC_005261.1 + 98660 0.66 0.823796
Target:  5'- cGGCCCCccaggcgaggGCGggcuccgCCGGGgCCGGAgGCGCg -3'
miRNA:   3'- -CUGGGGa---------UGCa------GGCCCaGGUCU-UGUG- -5'
23595 3' -57.3 NC_005261.1 + 32539 0.66 0.823796
Target:  5'- cGGCCCCggccGCGgCgCGGG-CCGGcGCGCg -3'
miRNA:   3'- -CUGGGGa---UGCaG-GCCCaGGUCuUGUG- -5'
23595 3' -57.3 NC_005261.1 + 71066 0.67 0.818679
Target:  5'- aGCCgCCgcgcggcgggcgggGCGUCCGGGcCCgAGAAgGCg -3'
miRNA:   3'- cUGG-GGa-------------UGCAGGCCCaGG-UCUUgUG- -5'
23595 3' -57.3 NC_005261.1 + 94055 0.67 0.815235
Target:  5'- -cCCCCaGCGgcgCCGGGagCAGAAC-Cg -3'
miRNA:   3'- cuGGGGaUGCa--GGCCCagGUCUUGuG- -5'
23595 3' -57.3 NC_005261.1 + 129819 0.67 0.806509
Target:  5'- cGCgCCCUGCGcCCGGauGcCCAGcGCGCg -3'
miRNA:   3'- cUG-GGGAUGCaGGCC--CaGGUCuUGUG- -5'
23595 3' -57.3 NC_005261.1 + 15913 0.67 0.806509
Target:  5'- cGCCCC-GCGcagCCGGGgCCGGGGC-Cg -3'
miRNA:   3'- cUGGGGaUGCa--GGCCCaGGUCUUGuG- -5'
23595 3' -57.3 NC_005261.1 + 1456 0.67 0.797627
Target:  5'- cGCCUCgGCGUgCGGcUCCAGcAGCGCg -3'
miRNA:   3'- cUGGGGaUGCAgGCCcAGGUC-UUGUG- -5'
23595 3' -57.3 NC_005261.1 + 87026 0.67 0.797627
Target:  5'- cGGCCCCgcGCGccaCCGcGUCCAGGcuGCGCa -3'
miRNA:   3'- -CUGGGGa-UGCa--GGCcCAGGUCU--UGUG- -5'
23595 3' -57.3 NC_005261.1 + 64871 0.67 0.795832
Target:  5'- -gUCCCagaucagcggcgGCGggagcgCCGGGUCCAGcAGCGCg -3'
miRNA:   3'- cuGGGGa-----------UGCa-----GGCCCAGGUC-UUGUG- -5'
23595 3' -57.3 NC_005261.1 + 33738 0.67 0.788596
Target:  5'- uGCCCCUcgcGCGgcgCCGGGgCCGGGccCGCu -3'
miRNA:   3'- cUGGGGA---UGCa--GGCCCaGGUCUu-GUG- -5'
23595 3' -57.3 NC_005261.1 + 111240 0.67 0.770124
Target:  5'- uAUCCCcGCGgCCGGGcCCAGGcCACc -3'
miRNA:   3'- cUGGGGaUGCaGGCCCaGGUCUuGUG- -5'
23595 3' -57.3 NC_005261.1 + 31556 0.67 0.770124
Target:  5'- cACgCCUGgG-CCGGGUCCuGGACGg -3'
miRNA:   3'- cUGgGGAUgCaGGCCCAGGuCUUGUg -5'
23595 3' -57.3 NC_005261.1 + 71950 0.68 0.751164
Target:  5'- cGCCCCacugGCGUCggcgCGGGgCgCGGAGCGCg -3'
miRNA:   3'- cUGGGGa---UGCAG----GCCCaG-GUCUUGUG- -5'
23595 3' -57.3 NC_005261.1 + 55600 0.68 0.751164
Target:  5'- cGCCCaUGCGcuccUCCuGGUCCAGcAGCGCg -3'
miRNA:   3'- cUGGGgAUGC----AGGcCCAGGUC-UUGUG- -5'
23595 3' -57.3 NC_005261.1 + 48640 0.68 0.751164
Target:  5'- cGCCCCUGCG-CCGGcccccGcCCGGAgagccGCGCg -3'
miRNA:   3'- cUGGGGAUGCaGGCC-----CaGGUCU-----UGUG- -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.