miRNA display CGI


Results 1 - 20 of 42 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
23345 3' -59.4 NC_005259.1 + 27459 0.65 0.614273
Target:  5'- cGUCGcGCGggaaauuGgGGCCGGgguCGGUGugGc -3'
miRNA:   3'- aCAGC-CGC-------UgUCGGCCau-GCCGCugC- -5'
23345 3' -59.4 NC_005259.1 + 22364 0.66 0.601776
Target:  5'- cGUCGcGaCGACaagggcaaaagcccGGUCGGccuCGGCGACGu -3'
miRNA:   3'- aCAGC-C-GCUG--------------UCGGCCau-GCCGCUGC- -5'
23345 3' -59.4 NC_005259.1 + 61747 0.66 0.594501
Target:  5'- cGUcCGGCGAgA-UCuGUGCGGCGGCa -3'
miRNA:   3'- aCA-GCCGCUgUcGGcCAUGCCGCUGc -5'
23345 3' -59.4 NC_005259.1 + 51477 0.66 0.594501
Target:  5'- -cUCGGCGACccacaccGCCGGggauaGGuCGACGc -3'
miRNA:   3'- acAGCCGCUGu------CGGCCaug--CC-GCUGC- -5'
23345 3' -59.4 NC_005259.1 + 39719 0.66 0.588276
Target:  5'- cGUCGGUGAgCaaguucggagauaugGGCCGG-AUGuGCGACa -3'
miRNA:   3'- aCAGCCGCU-G---------------UCGGCCaUGC-CGCUGc -5'
23345 3' -59.4 NC_005259.1 + 5070 0.66 0.584133
Target:  5'- cGUgGGCcgggucGACgGGCCGGUGucacCGGCGAUc -3'
miRNA:   3'- aCAgCCG------CUG-UCGGCCAU----GCCGCUGc -5'
23345 3' -59.4 NC_005259.1 + 20140 0.66 0.563512
Target:  5'- cGUCGcgaugaCGGCAGCCGGUGCccuGGCcACc -3'
miRNA:   3'- aCAGCc-----GCUGUCGGCCAUG---CCGcUGc -5'
23345 3' -59.4 NC_005259.1 + 66466 0.67 0.553273
Target:  5'- -cUCGGUGAC-GCUGGUgGCGGUGGu- -3'
miRNA:   3'- acAGCCGCUGuCGGCCA-UGCCGCUgc -5'
23345 3' -59.4 NC_005259.1 + 10332 0.67 0.553273
Target:  5'- -cUCGGCGACGGgCu---CGGCGGCa -3'
miRNA:   3'- acAGCCGCUGUCgGccauGCCGCUGc -5'
23345 3' -59.4 NC_005259.1 + 49705 0.67 0.54309
Target:  5'- cUGUCGGUGAgAuCCGGcagauauucgGCGgGCGGCGa -3'
miRNA:   3'- -ACAGCCGCUgUcGGCCa---------UGC-CGCUGC- -5'
23345 3' -59.4 NC_005259.1 + 27370 0.67 0.53297
Target:  5'- -cUUGGUGccCGGCaCGGUGacCGGCGGCGg -3'
miRNA:   3'- acAGCCGCu-GUCG-GCCAU--GCCGCUGC- -5'
23345 3' -59.4 NC_005259.1 + 39843 0.67 0.53297
Target:  5'- gGUCGGCGACAggauGCCGGUGa-GCu--- -3'
miRNA:   3'- aCAGCCGCUGU----CGGCCAUgcCGcugc -5'
23345 3' -59.4 NC_005259.1 + 19175 0.67 0.525926
Target:  5'- cGUCGGCGcucaacggugcccucGaCAGCgagcucgUGGUGCGgGCGGCGa -3'
miRNA:   3'- aCAGCCGC---------------U-GUCG-------GCCAUGC-CGCUGC- -5'
23345 3' -59.4 NC_005259.1 + 51563 0.67 0.522917
Target:  5'- cGUUGGggccaacgaucCGGCAGCCGGUGC--CGACa -3'
miRNA:   3'- aCAGCC-----------GCUGUCGGCCAUGccGCUGc -5'
23345 3' -59.4 NC_005259.1 + 4985 0.67 0.522917
Target:  5'- -uUCGGcCGAUGGCCGGgcacUACGGCaagGugGu -3'
miRNA:   3'- acAGCC-GCUGUCGGCC----AUGCCG---CugC- -5'
23345 3' -59.4 NC_005259.1 + 28905 0.67 0.516921
Target:  5'- uUGUCGGCGACgaggaacgccgccucAGCCaGaagcaGGCGGCa -3'
miRNA:   3'- -ACAGCCGCUG---------------UCGGcCaug--CCGCUGc -5'
23345 3' -59.4 NC_005259.1 + 55332 0.67 0.512939
Target:  5'- gGUCuuGGCGGCAG-CGGU--GGCGAUGc -3'
miRNA:   3'- aCAG--CCGCUGUCgGCCAugCCGCUGC- -5'
23345 3' -59.4 NC_005259.1 + 64576 0.67 0.511945
Target:  5'- gUGUCGGCGAaacgGGCCagcacaccaacgaGGUgacugACGGCGAgCGc -3'
miRNA:   3'- -ACAGCCGCUg---UCGG-------------CCA-----UGCCGCU-GC- -5'
23345 3' -59.4 NC_005259.1 + 64215 0.68 0.493225
Target:  5'- cGcCGGuCGGCAGcCCGGUAuCGGgGuCGa -3'
miRNA:   3'- aCaGCC-GCUGUC-GGCCAU-GCCgCuGC- -5'
23345 3' -59.4 NC_005259.1 + 61592 0.68 0.483498
Target:  5'- aUG-CGGUG--GGCCGGUGgGGuCGGCGg -3'
miRNA:   3'- -ACaGCCGCugUCGGCCAUgCC-GCUGC- -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.