miRNA display CGI


Results 1 - 20 of 38 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
23837 5' -55.9 NC_005261.1 + 34909 0.66 0.890003
Target:  5'- gACgCGGAgGUCGGgGcgcggccacGCGGGGGGCg -3'
miRNA:   3'- aUGaGUCUgCAGUCgC---------UGUUCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 43259 0.66 0.887928
Target:  5'- cGCUCguugagugcguucgGGGCGUC-GCGGCcgccuuucccgcGGGGGGCg -3'
miRNA:   3'- aUGAG--------------UCUGCAGuCGCUG------------UUCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 115635 0.66 0.883004
Target:  5'- aGCgCAG-CGUCGGgGGgaaGAGGGGCg -3'
miRNA:   3'- aUGaGUCuGCAGUCgCUg--UUCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 4524 0.66 0.868319
Target:  5'- cGCgCGGGCG-CcGCGGCGAGGGcGCc -3'
miRNA:   3'- aUGaGUCUGCaGuCGCUGUUCCC-CGa -5'
23837 5' -55.9 NC_005261.1 + 5746 0.66 0.860643
Target:  5'- cGCgcgCGGAaggugaggGUUAGUGugGGGGGGCUu -3'
miRNA:   3'- aUGa--GUCUg-------CAGUCGCugUUCCCCGA- -5'
23837 5' -55.9 NC_005261.1 + 38254 0.66 0.852753
Target:  5'- gGCUCGcACGcCAGCcugGGCuGGGGGCg -3'
miRNA:   3'- aUGAGUcUGCaGUCG---CUGuUCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 98288 0.66 0.852753
Target:  5'- cGCcCGGcGCGUCcGCGGCcucGGGGGCg -3'
miRNA:   3'- aUGaGUC-UGCAGuCGCUGu--UCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 58280 0.67 0.844655
Target:  5'- cGCUCAcGGgGcCGGCGcgcCGGGGGGCg -3'
miRNA:   3'- aUGAGU-CUgCaGUCGCu--GUUCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 90067 0.67 0.836358
Target:  5'- gGCgccccgCGGGCGccgagggCAGCGACG-GGGGCc -3'
miRNA:   3'- aUGa-----GUCUGCa------GUCGCUGUuCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 63967 0.67 0.836358
Target:  5'- aGCUgGuGCGUCAGCGcCAGcGGGCUc -3'
miRNA:   3'- aUGAgUcUGCAGUCGCuGUUcCCCGA- -5'
23837 5' -55.9 NC_005261.1 + 59450 0.67 0.827868
Target:  5'- gGCagCAGcGCGgccgCGGCGuCGGGGGGCa -3'
miRNA:   3'- aUGa-GUC-UGCa---GUCGCuGUUCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 98916 0.67 0.827868
Target:  5'- gGgUCGGcgGgGUCGGCuGCGGGGGGCa -3'
miRNA:   3'- aUgAGUC--UgCAGUCGcUGUUCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 110222 0.68 0.792143
Target:  5'- -cCUCGGcgacgccuccaGCGUgGGCGGCGcggcgcccgGGGGGCUg -3'
miRNA:   3'- auGAGUC-----------UGCAgUCGCUGU---------UCCCCGA- -5'
23837 5' -55.9 NC_005261.1 + 101418 0.68 0.792143
Target:  5'- uUGCgUCAcGACGUCGGcCGcCGAGGcGGCg -3'
miRNA:   3'- -AUG-AGU-CUGCAGUC-GCuGUUCC-CCGa -5'
23837 5' -55.9 NC_005261.1 + 44313 0.68 0.792143
Target:  5'- cUGCccgCGGGCG-CcGCaGACGGGGGGCUg -3'
miRNA:   3'- -AUGa--GUCUGCaGuCG-CUGUUCCCCGA- -5'
23837 5' -55.9 NC_005261.1 + 70578 0.68 0.791217
Target:  5'- aGCUCGGGCGcgagcgCAGCGGCGugcgcccgcccgaAGaGGGCc -3'
miRNA:   3'- aUGAGUCUGCa-----GUCGCUGU-------------UC-CCCGa -5'
23837 5' -55.9 NC_005261.1 + 129647 0.68 0.782815
Target:  5'- aACgguGGCGgCGGCGGCGgcAGGGGCg -3'
miRNA:   3'- aUGaguCUGCaGUCGCUGU--UCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 80875 0.68 0.782815
Target:  5'- cGCUCAGcCGcgcgggcuUCAGCGGCGccucccAGGGGUc -3'
miRNA:   3'- aUGAGUCuGC--------AGUCGCUGU------UCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 1395 0.68 0.773347
Target:  5'- cGC-CGGGCGccgcggccgCGGCGGCGgcGGGGGCg -3'
miRNA:   3'- aUGaGUCUGCa--------GUCGCUGU--UCCCCGa -5'
23837 5' -55.9 NC_005261.1 + 130475 0.68 0.763748
Target:  5'- gGCUCGcGGCGugccUCGGCGGCGAGGGc-- -3'
miRNA:   3'- aUGAGU-CUGC----AGUCGCUGUUCCCcga -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.