miRNA display CGI


Results 1 - 20 of 43 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
16478 3' -59.4 NC_004084.1 + 10931 0.66 0.54278
Target:  5'- gGGCCUCGAGGuCAaaUgggaUGGCGAGUc -3'
miRNA:   3'- gCCGGAGCUCCuGUcgGa---GCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 20024 0.66 0.54278
Target:  5'- uCGGCgCUCGAGGACGacgaucgcGUCUCGucaguCGAu- -3'
miRNA:   3'- -GCCG-GAGCUCCUGU--------CGGAGCu----GCUca -5'
16478 3' -59.4 NC_004084.1 + 8944 0.66 0.522268
Target:  5'- -cGCCgacgacucCGAGGACAGCggCGACGAa- -3'
miRNA:   3'- gcCGGa-------GCUCCUGUCGgaGCUGCUca -5'
16478 3' -59.4 NC_004084.1 + 41618 0.66 0.522268
Target:  5'- gGGuCCUCGAGGAaauucaacGCCgCGGCGAa- -3'
miRNA:   3'- gCC-GGAGCUCCUgu------CGGaGCUGCUca -5'
16478 3' -59.4 NC_004084.1 + 16286 0.66 0.512124
Target:  5'- gCGGUgCUCGuGcAUcGCCUCGACGAGa -3'
miRNA:   3'- -GCCG-GAGCuCcUGuCGGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 1421 0.66 0.502062
Target:  5'- --cCCUCGAGGGCuacgAG-UUCGACGAGUa -3'
miRNA:   3'- gccGGAGCUCCUG----UCgGAGCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 26971 0.66 0.502062
Target:  5'- cCGuCCUCGAGGGCAGUCacccUGaACGAGa -3'
miRNA:   3'- -GCcGGAGCUCCUGUCGGa---GC-UGCUCa -5'
16478 3' -59.4 NC_004084.1 + 43739 0.67 0.492088
Target:  5'- gGGCCaaUCGAGGACccGGCCggGACGc-- -3'
miRNA:   3'- gCCGG--AGCUCCUG--UCGGagCUGCuca -5'
16478 3' -59.4 NC_004084.1 + 13682 0.67 0.492088
Target:  5'- aGGCCgUCGuaGAUGGCgUCGAUGAGUc -3'
miRNA:   3'- gCCGG-AGCucCUGUCGgAGCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 25415 0.67 0.491095
Target:  5'- aCGGuggucuCCUCGAGGGCAGCUUgaaucacUGcCGGGUa -3'
miRNA:   3'- -GCC------GGAGCUCCUGUCGGA-------GCuGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 44190 0.67 0.482206
Target:  5'- cCGGCCaguaugucucggUUGAGGA---CCUCGACGAGc -3'
miRNA:   3'- -GCCGG------------AGCUCCUgucGGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 15733 0.67 0.482206
Target:  5'- uCGGUgaUCGcuGGCAGCCUCGcgcCGAGUa -3'
miRNA:   3'- -GCCGg-AGCucCUGUCGGAGCu--GCUCA- -5'
16478 3' -59.4 NC_004084.1 + 41444 0.67 0.480241
Target:  5'- gGGCCgacgcgaUCGAGGuCuugcaguGGCC-CGGCGAGUg -3'
miRNA:   3'- gCCGG-------AGCUCCuG-------UCGGaGCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 16045 0.67 0.462737
Target:  5'- -uGUC-CGAGGAC-GCaCUCGAUGAGUg -3'
miRNA:   3'- gcCGGaGCUCCUGuCG-GAGCUGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 28273 0.67 0.453158
Target:  5'- gCGGCUUCGAcucguGGACgggAGUCUCGcgaucggggcgGCGAGUa -3'
miRNA:   3'- -GCCGGAGCU-----CCUG---UCGGAGC-----------UGCUCA- -5'
16478 3' -59.4 NC_004084.1 + 21133 0.67 0.449358
Target:  5'- uGGCCUCccaGAGGACguccuggauugucgAGagcgaguCCUCGACGAGc -3'
miRNA:   3'- gCCGGAG---CUCCUG--------------UC-------GGAGCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 54035 0.67 0.439933
Target:  5'- -cGCCUucgaCGAGGACGGCUacgguuggacgcgCGACGAGg -3'
miRNA:   3'- gcCGGA----GCUCCUGUCGGa------------GCUGCUCa -5'
16478 3' -59.4 NC_004084.1 + 56992 0.68 0.406964
Target:  5'- gCGGCC--GAGGACGGCgaCGcCGAGa -3'
miRNA:   3'- -GCCGGagCUCCUGUCGgaGCuGCUCa -5'
16478 3' -59.4 NC_004084.1 + 16413 0.68 0.398085
Target:  5'- aCGGCCacUCGAGcaaaGACGGCgUCGAUGuGg -3'
miRNA:   3'- -GCCGG--AGCUC----CUGUCGgAGCUGCuCa -5'
16478 3' -59.4 NC_004084.1 + 51421 0.68 0.398085
Target:  5'- aGGCCuUCGAGGGCGacacGCUgaucuacgUUGGCGAGg -3'
miRNA:   3'- gCCGG-AGCUCCUGU----CGG--------AGCUGCUCa -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.