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
28907 3' -58.1 NC_006146.1 + 3823 0.66 0.833626
Target:  5'- uCAggCCAGGCGgggcacccccgcuGCCcuaccggaccuGGGAUCGCAUGa -3'
miRNA:   3'- -GUgaGGUCCGU-------------CGGu----------CCCUAGCGUAC- -5'
28907 3' -58.1 NC_006146.1 + 5083 0.69 0.655428
Target:  5'- gGCgUCCAcGCGGCCAGGGA-CGCc-- -3'
miRNA:   3'- gUG-AGGUcCGUCGGUCCCUaGCGuac -5'
28907 3' -58.1 NC_006146.1 + 18642 1.07 0.002548
Target:  5'- gCACUCCAGGCAGCCAGGGAUCGCAUGc -3'
miRNA:   3'- -GUGAGGUCCGUCGGUCCCUAGCGUAC- -5'
28907 3' -58.1 NC_006146.1 + 33097 0.69 0.63517
Target:  5'- gGCUCUgGGGCAGCCGGGuGGcCGCcgGc -3'
miRNA:   3'- gUGAGG-UCCGUCGGUCC-CUaGCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 33221 0.74 0.380707
Target:  5'- uGCUCCgGGGCAGCCGGGuGGcCGCcgGc -3'
miRNA:   3'- gUGAGG-UCCGUCGGUCC-CUaGCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 33343 0.74 0.36459
Target:  5'- uGCUCCgGGGCAGCCGGGuGGcCGCcgGu -3'
miRNA:   3'- gUGAGG-UCCGUCGGUCC-CUaGCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 34041 0.66 0.841757
Target:  5'- uGgUCCcgGGGCcuaugccGGCCGGGGGUCcCGUGg -3'
miRNA:   3'- gUgAGG--UCCG-------UCGGUCCCUAGcGUAC- -5'
28907 3' -58.1 NC_006146.1 + 34254 0.67 0.79133
Target:  5'- gACgCCGGGcCGGCUGGGGGUUGUg-- -3'
miRNA:   3'- gUGaGGUCC-GUCGGUCCCUAGCGuac -5'
28907 3' -58.1 NC_006146.1 + 41843 0.66 0.800268
Target:  5'- aCAC-CCGGGCcguGGCCAGGGGcuaccggggccUCGUg-- -3'
miRNA:   3'- -GUGaGGUCCG---UCGGUCCCU-----------AGCGuac -5'
28907 3' -58.1 NC_006146.1 + 44325 0.67 0.773039
Target:  5'- gGC-CguGGCAGCCGGGGGcuUCuGCAc- -3'
miRNA:   3'- gUGaGguCCGUCGGUCCCU--AG-CGUac -5'
28907 3' -58.1 NC_006146.1 + 46886 0.66 0.831152
Target:  5'- gGCUCCuGGGUguccgacgagcguaGGCCggguugaGGGGGUCGCAc- -3'
miRNA:   3'- gUGAGG-UCCG--------------UCGG-------UCCCUAGCGUac -5'
28907 3' -58.1 NC_006146.1 + 47604 0.76 0.284597
Target:  5'- cCACUCgGcGGCcGCCAGGGAUCGCc-- -3'
miRNA:   3'- -GUGAGgU-CCGuCGGUCCCUAGCGuac -5'
28907 3' -58.1 NC_006146.1 + 47663 0.67 0.744701
Target:  5'- gGC-CCAgcgcGGCGGCCAGGGucUCGUggAUGg -3'
miRNA:   3'- gUGaGGU----CCGUCGGUCCCu-AGCG--UAC- -5'
28907 3' -58.1 NC_006146.1 + 48475 0.66 0.841757
Target:  5'- -uUUCCGauagcauGGCGGCCA-GGAUcCGCGUGa -3'
miRNA:   3'- guGAGGU-------CCGUCGGUcCCUA-GCGUAC- -5'
28907 3' -58.1 NC_006146.1 + 51637 0.72 0.481088
Target:  5'- uGCUCCAGGCucuggacucccagggGGCCAGGGccggUGCcgGg -3'
miRNA:   3'- gUGAGGUCCG---------------UCGGUCCCua--GCGuaC- -5'
28907 3' -58.1 NC_006146.1 + 52700 0.7 0.625033
Target:  5'- aGCUCCGGGCgggaGGUCAGGGggCgGCcgGc -3'
miRNA:   3'- gUGAGGUCCG----UCGGUCCCuaG-CGuaC- -5'
28907 3' -58.1 NC_006146.1 + 64863 0.66 0.800268
Target:  5'- gGCUCCaaguccggauGGGCGGCCAcGGccaGCAUGg -3'
miRNA:   3'- gUGAGG----------UCCGUCGGUcCCuagCGUAC- -5'
28907 3' -58.1 NC_006146.1 + 77930 0.71 0.5154
Target:  5'- -cCUCgCAGGU-GCCGGGGGUCGCuguuUGg -3'
miRNA:   3'- guGAG-GUCCGuCGGUCCCUAGCGu---AC- -5'
28907 3' -58.1 NC_006146.1 + 78824 0.66 0.825316
Target:  5'- aCGCgUCCAGGCAGCCguguccgGGGGAgagaacuccgGCAg- -3'
miRNA:   3'- -GUG-AGGUCCGUCGG-------UCCCUag--------CGUac -5'
28907 3' -58.1 NC_006146.1 + 100235 0.66 0.817688
Target:  5'- aGCUCCGuGGCAGUgGGGGcguucaCGCAc- -3'
miRNA:   3'- gUGAGGU-CCGUCGgUCCCua----GCGUac -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.