miRNA display CGI


Results 1 - 20 of 103 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
23817 3' -52.8 NC_005261.1 + 134431 0.76 0.52011
Target:  5'- ---uCCAcGCUGCUCGCGGGGCUGCu- -3'
miRNA:   3'- uaauGGU-UGAUGAGCGUCUCGGCGcu -5'
23817 3' -52.8 NC_005261.1 + 68156 0.76 0.52011
Target:  5'- --gGCCGGCUACacgcgCGCGGAGCuCGCGc -3'
miRNA:   3'- uaaUGGUUGAUGa----GCGUCUCG-GCGCu -5'
23817 3' -52.8 NC_005261.1 + 15232 0.75 0.530354
Target:  5'- --aGCCGGCguugaggccccGCUCGCAGugGGCCGCGAu -3'
miRNA:   3'- uaaUGGUUGa----------UGAGCGUC--UCGGCGCU- -5'
23817 3' -52.8 NC_005261.1 + 57284 0.75 0.582539
Target:  5'- --cGgCAGCUGCUCGCgAGcAGCCGCGc -3'
miRNA:   3'- uaaUgGUUGAUGAGCG-UC-UCGGCGCu -5'
23817 3' -52.8 NC_005261.1 + 14439 0.74 0.603733
Target:  5'- --aACuCGGCUcGCUCGCGGGGCgCGCGGc -3'
miRNA:   3'- uaaUG-GUUGA-UGAGCGUCUCG-GCGCU- -5'
23817 3' -52.8 NC_005261.1 + 33480 0.74 0.635675
Target:  5'- --aGCCgGGCccGCUCGCGGGGCCcGCGAg -3'
miRNA:   3'- uaaUGG-UUGa-UGAGCGUCUCGG-CGCU- -5'
23817 3' -52.8 NC_005261.1 + 133681 0.73 0.655904
Target:  5'- --cGCCAACgGCUCGCuccgcugGGAGCUGCGc -3'
miRNA:   3'- uaaUGGUUGaUGAGCG-------UCUCGGCGCu -5'
23817 3' -52.8 NC_005261.1 + 121482 0.73 0.667587
Target:  5'- -gUACCGGCUGC-CGCcacGGGGCgGCGGg -3'
miRNA:   3'- uaAUGGUUGAUGaGCG---UCUCGgCGCU- -5'
23817 3' -52.8 NC_005261.1 + 129724 0.73 0.667587
Target:  5'- --cGCCGGCUGCagCgGCAGGGCgGCGGg -3'
miRNA:   3'- uaaUGGUUGAUGa-G-CGUCUCGgCGCU- -5'
23817 3' -52.8 NC_005261.1 + 103824 0.73 0.677118
Target:  5'- --cGCCAGCaGCUCGCGGAggagcucgcccuuGCgCGCGAg -3'
miRNA:   3'- uaaUGGUUGaUGAGCGUCU-------------CG-GCGCU- -5'
23817 3' -52.8 NC_005261.1 + 50407 0.72 0.699218
Target:  5'- --gGCCGGCaGCcccgcgUCGCGGAGCCGCu- -3'
miRNA:   3'- uaaUGGUUGaUG------AGCGUCUCGGCGcu -5'
23817 3' -52.8 NC_005261.1 + 100456 0.72 0.699218
Target:  5'- --cGCCAGCUugUCGCcc-GCCGCGc -3'
miRNA:   3'- uaaUGGUUGAugAGCGucuCGGCGCu -5'
23817 3' -52.8 NC_005261.1 + 58337 0.72 0.730298
Target:  5'- --cACCGc---CUCGCGGAGCCGCGc -3'
miRNA:   3'- uaaUGGUugauGAGCGUCUCGGCGCu -5'
23817 3' -52.8 NC_005261.1 + 3800 0.72 0.740488
Target:  5'- --cGCCAGCUcgcgcagccGCUCGCGcgcuGCCGCGGg -3'
miRNA:   3'- uaaUGGUUGA---------UGAGCGUcu--CGGCGCU- -5'
23817 3' -52.8 NC_005261.1 + 33758 0.71 0.750576
Target:  5'- --gGCCgGGCccGCUCGCGGGGCCcGCGGc -3'
miRNA:   3'- uaaUGG-UUGa-UGAGCGUCUCGG-CGCU- -5'
23817 3' -52.8 NC_005261.1 + 121949 0.71 0.759558
Target:  5'- --cGCCAGCUugaaccaGCUCGCcGuGCCGCGc -3'
miRNA:   3'- uaaUGGUUGA-------UGAGCGuCuCGGCGCu -5'
23817 3' -52.8 NC_005261.1 + 76739 0.71 0.76055
Target:  5'- --gGCCGACgUGCUCGCGGAcGUgGCGc -3'
miRNA:   3'- uaaUGGUUG-AUGAGCGUCU-CGgCGCu -5'
23817 3' -52.8 NC_005261.1 + 57385 0.71 0.780119
Target:  5'- --cGCCAGCaGCUCGgGGAGCgCGCc- -3'
miRNA:   3'- uaaUGGUUGaUGAGCgUCUCG-GCGcu -5'
23817 3' -52.8 NC_005261.1 + 39003 0.71 0.789693
Target:  5'- -gUGCCAGCgcgcccACgCGCAGAGCgucCGCGAg -3'
miRNA:   3'- uaAUGGUUGa-----UGaGCGUCUCG---GCGCU- -5'
23817 3' -52.8 NC_005261.1 + 132088 0.71 0.799113
Target:  5'- --cGCC-GCUGC-CGCGGAgggcgGCCGCGAc -3'
miRNA:   3'- uaaUGGuUGAUGaGCGUCU-----CGGCGCU- -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.