miRNA display CGI


Results 1 - 20 of 48 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
28181 5' -63.4 NC_005887.1 + 41219 0.66 0.264433
Target:  5'- -cGCGCaCGCGCGGcuucGuCAGuUCGAGCUu -3'
miRNA:   3'- acCGCG-GCGCGCCa---C-GUCcAGCUCGA- -5'
28181 5' -63.4 NC_005887.1 + 41032 1.06 0.000179
Target:  5'- cUGGCGCCGCGCGGUGCAGGUCGAGCUc -3'
miRNA:   3'- -ACCGCGGCGCGCCACGUCCAGCUCGA- -5'
28181 5' -63.4 NC_005887.1 + 40864 0.67 0.210493
Target:  5'- -cGCGCCGCGCGaGcGCcgcacgccgucGGcGUCGGGCUc -3'
miRNA:   3'- acCGCGGCGCGC-CaCG-----------UC-CAGCUCGA- -5'
28181 5' -63.4 NC_005887.1 + 40552 0.67 0.210493
Target:  5'- cGGCgGCaCGUccuucggguaGCGGccgacgcGCAGGUCGAGCa -3'
miRNA:   3'- aCCG-CG-GCG----------CGCCa------CGUCCAGCUCGa -5'
28181 5' -63.4 NC_005887.1 + 37399 0.7 0.13938
Target:  5'- cUGGCGCUGCGCGGUcGCgacugccugcacgccAGGUgCgGAGUg -3'
miRNA:   3'- -ACCGCGGCGCGCCA-CG---------------UCCA-G-CUCGa -5'
28181 5' -63.4 NC_005887.1 + 36975 0.73 0.077366
Target:  5'- cGGCGUCGCGCGGgucgagcucGCcGG-CGAGCa -3'
miRNA:   3'- aCCGCGGCGCGCCa--------CGuCCaGCUCGa -5'
28181 5' -63.4 NC_005887.1 + 36948 0.67 0.199872
Target:  5'- cGGCGCCGCccgcCGGUuCAccGGUCGcGCUg -3'
miRNA:   3'- aCCGCGGCGc---GCCAcGU--CCAGCuCGA- -5'
28181 5' -63.4 NC_005887.1 + 36848 0.67 0.205123
Target:  5'- cGGUGCUGCGgcCGGUGCugcGGcCGGuGCUg -3'
miRNA:   3'- aCCGCGGCGC--GCCACGu--CCaGCU-CGA- -5'
28181 5' -63.4 NC_005887.1 + 32709 0.69 0.166305
Target:  5'- cGGauaGCCGCGCGGUucacccacgGCGGGguagCGcGGCg -3'
miRNA:   3'- aCCg--CGGCGCGCCA---------CGUCCa---GC-UCGa -5'
28181 5' -63.4 NC_005887.1 + 30803 0.66 0.264433
Target:  5'- --cCGCCGCGCGcUGCGcGcCGAGCUg -3'
miRNA:   3'- accGCGGCGCGCcACGUcCaGCUCGA- -5'
28181 5' -63.4 NC_005887.1 + 29977 0.66 0.245302
Target:  5'- --cCGCCGCGCGGaUGCu-GUCGAGg- -3'
miRNA:   3'- accGCGGCGCGCC-ACGucCAGCUCga -5'
28181 5' -63.4 NC_005887.1 + 29738 0.72 0.099344
Target:  5'- -cGCGCCGCGC-GUGCAcGGUcuugcccggCGAGCUg -3'
miRNA:   3'- acCGCGGCGCGcCACGU-CCA---------GCUCGA- -5'
28181 5' -63.4 NC_005887.1 + 28209 0.66 0.271074
Target:  5'- -aGCGCCGCGCGucucgGCGGuuUUGAGCa -3'
miRNA:   3'- acCGCGGCGCGCca---CGUCc-AGCUCGa -5'
28181 5' -63.4 NC_005887.1 + 27472 0.67 0.232605
Target:  5'- cUGGCgcauucuGCCGCGCGGUGCGcgcuGUUGcuGCg -3'
miRNA:   3'- -ACCG-------CGGCGCGCCACGUc---CAGCu-CGa -5'
28181 5' -63.4 NC_005887.1 + 27379 0.71 0.107901
Target:  5'- cGGC-CUGCGCGGcGUAGGcgUCGAGUUg -3'
miRNA:   3'- aCCGcGGCGCGCCaCGUCC--AGCUCGA- -5'
28181 5' -63.4 NC_005887.1 + 26657 0.75 0.050709
Target:  5'- cGGCggaaucauccgGCCGCGCGGcggugaGCuGGUCGAGCUc -3'
miRNA:   3'- aCCG-----------CGGCGCGCCa-----CGuCCAGCUCGA- -5'
28181 5' -63.4 NC_005887.1 + 26435 0.78 0.034033
Target:  5'- cGGC-CCGCGCGGaacGCAGGUCGgccAGCUg -3'
miRNA:   3'- aCCGcGGCGCGCCa--CGUCCAGC---UCGA- -5'
28181 5' -63.4 NC_005887.1 + 26420 0.67 0.233197
Target:  5'- cUGGCgGCCGCGCGGgaacgcgcgcUGCAGccgcgCGAGa- -3'
miRNA:   3'- -ACCG-CGGCGCGCC----------ACGUCca---GCUCga -5'
28181 5' -63.4 NC_005887.1 + 26088 0.71 0.110904
Target:  5'- cGGC-CCGCGCGGcGUuucauGGcGUCGAGCa -3'
miRNA:   3'- aCCGcGGCGCGCCaCG-----UC-CAGCUCGa -5'
28181 5' -63.4 NC_005887.1 + 25257 0.67 0.199872
Target:  5'- cGGCGUCGuCGaGGUauuGCGagcGGUCGAGCa -3'
miRNA:   3'- aCCGCGGC-GCgCCA---CGU---CCAGCUCGa -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.