miRNA display CGI


Results 1 - 20 of 22 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
16391 5' -59.7 NC_004084.1 + 56432 0.65 0.510701
Target:  5'- -aGCGGCacCGUcgcgaacgacgaucUCGACGGCGCgCUCUc- -3'
miRNA:   3'- gaCGCCG--GCA--------------AGCUGUCGCG-GAGGug -5'
16391 5' -59.7 NC_004084.1 + 38535 0.66 0.493551
Target:  5'- -aGcCGGCCGUgguugacgacgUCGACGucGCGCgUUCGCu -3'
miRNA:   3'- gaC-GCCGGCA-----------AGCUGU--CGCGgAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 34190 0.66 0.483587
Target:  5'- -aGCGGgCGUuaauUCGcccGCAcGUGCCUUCACg -3'
miRNA:   3'- gaCGCCgGCA----AGC---UGU-CGCGGAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 27002 0.66 0.483587
Target:  5'- -cGCGGCCGcgUCGuCuGCGaCUUCGCc -3'
miRNA:   3'- gaCGCCGGCa-AGCuGuCGCgGAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 10376 0.66 0.47372
Target:  5'- uUGCGGCCGgucgUCGucACGGUGagcaaCUCCcGCu -3'
miRNA:   3'- gACGCCGGCa---AGC--UGUCGCg----GAGG-UG- -5'
16391 5' -59.7 NC_004084.1 + 28784 0.67 0.454298
Target:  5'- -cGCGGCCGUUCGAgGagaucguccggGCGaCCggagagaCCACc -3'
miRNA:   3'- gaCGCCGGCAAGCUgU-----------CGC-GGa------GGUG- -5'
16391 5' -59.7 NC_004084.1 + 27015 0.67 0.454298
Target:  5'- -cGCGuccGCCGUcgCGAUGGaggcagucgcCGCCUCCACu -3'
miRNA:   3'- gaCGC---CGGCAa-GCUGUC----------GCGGAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 17254 0.67 0.435315
Target:  5'- uCUGCGGCCGgugcagUCGGCGauGC-CCUCgGu -3'
miRNA:   3'- -GACGCCGGCa-----AGCUGU--CGcGGAGgUg -5'
16391 5' -59.7 NC_004084.1 + 10993 0.67 0.435315
Target:  5'- ---aGGCCcucgagUGGCAGCGCCUCCuCg -3'
miRNA:   3'- gacgCCGGcaa---GCUGUCGCGGAGGuG- -5'
16391 5' -59.7 NC_004084.1 + 845 0.67 0.435315
Target:  5'- -cGaCGaGCCGaUCGGCcuggugguccAGCGCCUCCGa -3'
miRNA:   3'- gaC-GC-CGGCaAGCUG----------UCGCGGAGGUg -5'
16391 5' -59.7 NC_004084.1 + 8479 0.67 0.414974
Target:  5'- gCUGUGGCCGgaCGACAagGCGauguucaccgaUCCGCa -3'
miRNA:   3'- -GACGCCGGCaaGCUGU--CGCgg---------AGGUG- -5'
16391 5' -59.7 NC_004084.1 + 25406 0.67 0.407723
Target:  5'- cCUGCGaGaaGgggcgCGACGGCGgCCUCUGCg -3'
miRNA:   3'- -GACGC-CggCaa---GCUGUCGC-GGAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 43565 0.68 0.398772
Target:  5'- -gGCGGCCGUcauccCGACgaGGCGCggaucCUCCAg -3'
miRNA:   3'- gaCGCCGGCAa----GCUG--UCGCG-----GAGGUg -5'
16391 5' -59.7 NC_004084.1 + 47365 0.68 0.396111
Target:  5'- -gGCGGCCGccccuucguccgcgUcgUCGACGGCGagCUCCAg -3'
miRNA:   3'- gaCGCCGGC--------------A--AGCUGUCGCg-GAGGUg -5'
16391 5' -59.7 NC_004084.1 + 6127 0.69 0.351036
Target:  5'- gCUGUGGUCGUUCGuCGGUGagguccuacacggguUCUCCAUc -3'
miRNA:   3'- -GACGCCGGCAAGCuGUCGC---------------GGAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 2807 0.69 0.347786
Target:  5'- uCUGCcGCUcugGUUCGAC--CGCCUCCACc -3'
miRNA:   3'- -GACGcCGG---CAAGCUGucGCGGAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 22537 0.69 0.323328
Target:  5'- -gGCGGCCGUgaccagucccgacUCGAuCAGCucGUCUCCGa -3'
miRNA:   3'- gaCGCCGGCA-------------AGCU-GUCG--CGGAGGUg -5'
16391 5' -59.7 NC_004084.1 + 29077 0.69 0.316472
Target:  5'- -cGCGGuuGccgUCGACGGCGagCUUCACc -3'
miRNA:   3'- gaCGCCggCa--AGCUGUCGCg-GAGGUG- -5'
16391 5' -59.7 NC_004084.1 + 36909 0.7 0.294413
Target:  5'- -cGCGGCuCGUUCGAuCGGCGUUcgUCgACg -3'
miRNA:   3'- gaCGCCG-GCAAGCU-GUCGCGG--AGgUG- -5'
16391 5' -59.7 NC_004084.1 + 39947 0.72 0.223783
Target:  5'- aCUGCaGCucagCGUgcUCGACGGCGCCgcggCCGCc -3'
miRNA:   3'- -GACGcCG----GCA--AGCUGUCGCGGa---GGUG- -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.