miRNA display CGI


Results 1 - 20 of 29 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
7242 5' -57.1 NC_001900.1 + 39191 0.66 0.599765
Target:  5'- aGCAucaggauucgaGCcGCCgcgucGGUCAUCGACCgaAGCUc -3'
miRNA:   3'- gCGU-----------UGcCGGa----CCAGUAGCUGG--UCGA- -5'
7242 5' -57.1 NC_001900.1 + 29870 0.66 0.599765
Target:  5'- cCGCAcCGuccuugaacGCCUGGaUCAUCGuCCGGUc -3'
miRNA:   3'- -GCGUuGC---------CGGACC-AGUAGCuGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 25442 0.66 0.599765
Target:  5'- gCGCAccauCaGCUccuUGGUCGUCGcACCGGCc -3'
miRNA:   3'- -GCGUu---GcCGG---ACCAGUAGC-UGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 32128 0.66 0.588824
Target:  5'- aGCGACGGCa-GGcCAgccaguaGGCCAGCc -3'
miRNA:   3'- gCGUUGCCGgaCCaGUag-----CUGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 30603 0.66 0.588824
Target:  5'- ----uUGGCCuUGGUCGUCuugugcuccuuGGCCAGCUu -3'
miRNA:   3'- gcguuGCCGG-ACCAGUAG-----------CUGGUCGA- -5'
7242 5' -57.1 NC_001900.1 + 43312 0.66 0.56706
Target:  5'- aGCGAgGGCCaGGUUGU--ACCGGCg -3'
miRNA:   3'- gCGUUgCCGGaCCAGUAgcUGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 26885 0.66 0.56706
Target:  5'- uCGCAACGGCC-GGaacCGUCGccgUCGGCg -3'
miRNA:   3'- -GCGUUGCCGGaCCa--GUAGCu--GGUCGa -5'
7242 5' -57.1 NC_001900.1 + 3035 0.66 0.545506
Target:  5'- gGCGACGgguccGCCUGGagAUCGAgCgGGCa -3'
miRNA:   3'- gCGUUGC-----CGGACCagUAGCU-GgUCGa -5'
7242 5' -57.1 NC_001900.1 + 23947 0.66 0.545506
Target:  5'- uCGguGCGGCUcGGUCcaccUCGAaaCCGGCg -3'
miRNA:   3'- -GCguUGCCGGaCCAGu---AGCU--GGUCGa -5'
7242 5' -57.1 NC_001900.1 + 22262 0.67 0.513699
Target:  5'- aGCGAUGGCCgaGGUCGUgGAgUgacggAGCUa -3'
miRNA:   3'- gCGUUGCCGGa-CCAGUAgCUgG-----UCGA- -5'
7242 5' -57.1 NC_001900.1 + 15358 0.67 0.482677
Target:  5'- aCGagaaGGCGGuCCUGGUCGugaUCGAagaCGGCg -3'
miRNA:   3'- -GCg---UUGCC-GGACCAGU---AGCUg--GUCGa -5'
7242 5' -57.1 NC_001900.1 + 28229 0.68 0.472537
Target:  5'- uGCgGACGGCCUcgucGGUagCGUCGugCAGUc -3'
miRNA:   3'- gCG-UUGCCGGA----CCA--GUAGCugGUCGa -5'
7242 5' -57.1 NC_001900.1 + 26258 0.68 0.442786
Target:  5'- uCGCGcuCGGCCggcggGGUCcacuccucguuGUCGAUCAGCc -3'
miRNA:   3'- -GCGUu-GCCGGa----CCAG-----------UAGCUGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 43096 0.69 0.42355
Target:  5'- cCGCuuGCGGCCUGGcCGguucagCaGCCAGCc -3'
miRNA:   3'- -GCGu-UGCCGGACCaGUa-----GcUGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 726 0.69 0.414122
Target:  5'- cCGCAGCGGUCUGGaaCGUCuACC-GCa -3'
miRNA:   3'- -GCGUUGCCGGACCa-GUAGcUGGuCGa -5'
7242 5' -57.1 NC_001900.1 + 25852 0.7 0.368979
Target:  5'- gGCGAUGGCagacgaguucgaCUGaGUCGUacCGGCCAGCUc -3'
miRNA:   3'- gCGUUGCCG------------GAC-CAGUA--GCUGGUCGA- -5'
7242 5' -57.1 NC_001900.1 + 1266 0.7 0.360364
Target:  5'- gGCGGCGGgUUcGGUgGuUCGACCGGCa -3'
miRNA:   3'- gCGUUGCCgGA-CCAgU-AGCUGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 34733 0.7 0.35951
Target:  5'- gCGCGAUGGCgUGGUCgAUCuccaucgcaucgaGACCGGUc -3'
miRNA:   3'- -GCGUUGCCGgACCAG-UAG-------------CUGGUCGa -5'
7242 5' -57.1 NC_001900.1 + 2257 0.7 0.33537
Target:  5'- gGUGACGGCCaGGUCGaggucagCGACgAGCa -3'
miRNA:   3'- gCGUUGCCGGaCCAGUa------GCUGgUCGa -5'
7242 5' -57.1 NC_001900.1 + 31391 0.7 0.327325
Target:  5'- aGCAuCGuGCCgagGGU-GUCGGCCAGCg -3'
miRNA:   3'- gCGUuGC-CGGa--CCAgUAGCUGGUCGa -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.