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
19593 3' -53.3 NC_004686.1 + 2612 0.66 0.842372
Target:  5'- aCGCCUcCGAgGccacuggugaguGGAAUCGGCGcCGUCGc -3'
miRNA:   3'- -GCGGA-GCUgC------------CCUUAGUUGU-GCAGCu -5'
19593 3' -53.3 NC_004686.1 + 52144 0.66 0.837115
Target:  5'- aGCCUgcaaucguugcacggCGAUGGGuugcggguuGUCGACcgauGCGUCGAg -3'
miRNA:   3'- gCGGA---------------GCUGCCCu--------UAGUUG----UGCAGCU- -5'
19593 3' -53.3 NC_004686.1 + 11007 0.66 0.833568
Target:  5'- aCGUUUCGGUGGGggUCGugcuCACGgCGGu -3'
miRNA:   3'- -GCGGAGCUGCCCuuAGUu---GUGCaGCU- -5'
19593 3' -53.3 NC_004686.1 + 21830 0.67 0.815335
Target:  5'- gCGCCUCGGCGGcgcg-GGCGCGggCGGc -3'
miRNA:   3'- -GCGGAGCUGCCcuuagUUGUGCa-GCU- -5'
19593 3' -53.3 NC_004686.1 + 39290 0.67 0.815335
Target:  5'- -aCCUCaACGGGggUCAggACACGgcCGGu -3'
miRNA:   3'- gcGGAGcUGCCCuuAGU--UGUGCa-GCU- -5'
19593 3' -53.3 NC_004686.1 + 35289 0.67 0.805925
Target:  5'- gGCgUCGGCGuGGAAUgAGCugGcUGAg -3'
miRNA:   3'- gCGgAGCUGC-CCUUAgUUGugCaGCU- -5'
19593 3' -53.3 NC_004686.1 + 43590 0.67 0.805925
Target:  5'- gCGCCgcaaUGAUGGGcgGAUCAACGgGUCu- -3'
miRNA:   3'- -GCGGa---GCUGCCC--UUAGUUGUgCAGcu -5'
19593 3' -53.3 NC_004686.1 + 25823 0.67 0.786574
Target:  5'- gCGCCggcccgCGGcCGGGAcagAUCAACgguuucgccgACGUCGGu -3'
miRNA:   3'- -GCGGa-----GCU-GCCCU---UAGUUG----------UGCAGCU- -5'
19593 3' -53.3 NC_004686.1 + 47416 0.67 0.776653
Target:  5'- aCGCCUCGACGGu----GGCGCGguUCGGc -3'
miRNA:   3'- -GCGGAGCUGCCcuuagUUGUGC--AGCU- -5'
19593 3' -53.3 NC_004686.1 + 29268 0.68 0.766582
Target:  5'- uGCCUgGAUGGGGcgCAACACc---- -3'
miRNA:   3'- gCGGAgCUGCCCUuaGUUGUGcagcu -5'
19593 3' -53.3 NC_004686.1 + 36222 0.68 0.735591
Target:  5'- gGCUuggCGACGGGGAUUuggguuucCGCGUUGAg -3'
miRNA:   3'- gCGGa--GCUGCCCUUAGuu------GUGCAGCU- -5'
19593 3' -53.3 NC_004686.1 + 24772 0.7 0.649215
Target:  5'- uCGUgaCGACGGGGAUCAGCGgcaGUUGc -3'
miRNA:   3'- -GCGgaGCUGCCCUUAGUUGUg--CAGCu -5'
19593 3' -53.3 NC_004686.1 + 27116 0.71 0.59436
Target:  5'- gCGCCUCGACGGcGAGcCAGC---UCGAa -3'
miRNA:   3'- -GCGGAGCUGCC-CUUaGUUGugcAGCU- -5'
19593 3' -53.3 NC_004686.1 + 25591 0.71 0.59436
Target:  5'- gGCCUgcgguacaUGGCGGaGAUCAAgACGUCGGa -3'
miRNA:   3'- gCGGA--------GCUGCCcUUAGUUgUGCAGCU- -5'
19593 3' -53.3 NC_004686.1 + 25250 0.71 0.547769
Target:  5'- aGCCUCGACGgcgguuuugaugauGGggUCGAa--GUCGAu -3'
miRNA:   3'- gCGGAGCUGC--------------CCuuAGUUgugCAGCU- -5'
19593 3' -53.3 NC_004686.1 + 49477 0.72 0.498249
Target:  5'- aCGCCUUGACGuGGcgacUCAACAC-UCGAc -3'
miRNA:   3'- -GCGGAGCUGC-CCuu--AGUUGUGcAGCU- -5'
19593 3' -53.3 NC_004686.1 + 23879 0.73 0.447886
Target:  5'- aCGCUcacaUCGGCGGGggUU---GCGUCGAg -3'
miRNA:   3'- -GCGG----AGCUGCCCuuAGuugUGCAGCU- -5'
19593 3' -53.3 NC_004686.1 + 33780 0.75 0.373608
Target:  5'- aCGgCUUGuuCGGGggUCGGCAUGUCGu -3'
miRNA:   3'- -GCgGAGCu-GCCCuuAGUUGUGCAGCu -5'
19593 3' -53.3 NC_004686.1 + 22006 1.09 0.001979
Target:  5'- uCGCCUCGACGGGAAUCAACACGUCGAu -3'
miRNA:   3'- -GCGGAGCUGCCCUUAGUUGUGCAGCU- -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.