miRNA display CGI


Results 1 - 20 of 21 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
1204 5' -55.6 NC_001132.2 + 158693 0.69 0.818618
Target:  5'- aGCAUCGGacgagccaacGCACGuugucacgaaACACGAucuCCGCGUCc -3'
miRNA:   3'- aCGUGGCU----------UGUGC----------UGUGCU---GGCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 156581 0.79 0.31931
Target:  5'- cUGUAUCGAACACG-C-UGACCGCGUCc -3'
miRNA:   3'- -ACGUGGCUUGUGCuGuGCUGGCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 152406 0.69 0.801204
Target:  5'- -cCGCCGAugauguagauACauccuccuaucGCGuACGCGGCCGCGUCa -3'
miRNA:   3'- acGUGGCU----------UG-----------UGC-UGUGCUGGCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 134227 0.67 0.913177
Target:  5'- -cCGCCucGCACGugGCG-CgCGCGUCc -3'
miRNA:   3'- acGUGGcuUGUGCugUGCuG-GCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 119746 0.67 0.907205
Target:  5'- aGCGCCuuuucguACAUGACACGAgaCGUGUa -3'
miRNA:   3'- aCGUGGcu-----UGUGCUGUGCUg-GCGCAg -5'
1204 5' -55.6 NC_001132.2 + 107917 0.66 0.93423
Target:  5'- cGUAcccCCGGACAUaaugggaGAUACacauuuGACCGCGUCg -3'
miRNA:   3'- aCGU---GGCUUGUG-------CUGUG------CUGGCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 104728 0.66 0.944088
Target:  5'- -uUACCGAACcCG-CACGAUagaugcaGCGUCa -3'
miRNA:   3'- acGUGGCUUGuGCuGUGCUGg------CGCAG- -5'
1204 5' -55.6 NC_001132.2 + 90701 0.68 0.859105
Target:  5'- aGCGuaGGAUACGgguACACGACgGCGUa -3'
miRNA:   3'- aCGUggCUUGUGC---UGUGCUGgCGCAg -5'
1204 5' -55.6 NC_001132.2 + 87616 0.66 0.934723
Target:  5'- aUGUACCua--AgGACAUGGCCGUGUUu -3'
miRNA:   3'- -ACGUGGcuugUgCUGUGCUGGCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 69035 0.69 0.827079
Target:  5'- gUGCACUGGACACGAUuauauuguuuACGGaaGUGUa -3'
miRNA:   3'- -ACGUGGCUUGUGCUG----------UGCUggCGCAg -5'
1204 5' -55.6 NC_001132.2 + 50370 0.67 0.881031
Target:  5'- uUGCGCCGua-ACGACGCaaucgaACCGCucGUCg -3'
miRNA:   3'- -ACGUGGCuugUGCUGUGc-----UGGCG--CAG- -5'
1204 5' -55.6 NC_001132.2 + 42401 0.66 0.934723
Target:  5'- aGCGCauaaaGAACACcuuuACACGAUCGUGg- -3'
miRNA:   3'- aCGUGg----CUUGUGc---UGUGCUGGCGCag -5'
1204 5' -55.6 NC_001132.2 + 20624 0.73 0.625823
Target:  5'- cGCGgggaaacaGAGgACGACACGACCGUGUUa -3'
miRNA:   3'- aCGUgg------CUUgUGCUGUGCUGGCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 10713 0.68 0.866623
Target:  5'- gGCGgaCGAACGgGGaACGACgGCGUCg -3'
miRNA:   3'- aCGUg-GCUUGUgCUgUGCUGgCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 9604 0.72 0.670422
Target:  5'- gGCaACCGAACuugucagaauuccguAgUGACGCGGCCGCGUa -3'
miRNA:   3'- aCG-UGGCUUG---------------U-GCUGUGCUGGCGCAg -5'
1204 5' -55.6 NC_001132.2 + 7956 0.75 0.48443
Target:  5'- gGUACCGGAUACGAUcacguuggauacggACGAUgGCGUCc -3'
miRNA:   3'- aCGUGGCUUGUGCUG--------------UGCUGgCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 7538 0.66 0.92442
Target:  5'- cGCAUCGAGCGgauaaaGACGCuGuCCGCGg- -3'
miRNA:   3'- aCGUGGCUUGUg-----CUGUG-CuGGCGCag -5'
1204 5' -55.6 NC_001132.2 + 6828 0.66 0.934723
Target:  5'- cGUACgaaCGAACAcacCGACACGaACCaCGUCu -3'
miRNA:   3'- aCGUG---GCUUGU---GCUGUGC-UGGcGCAG- -5'
1204 5' -55.6 NC_001132.2 + 5615 0.66 0.934723
Target:  5'- -aCGCCGGACGCcuACACGAggGCGUUg -3'
miRNA:   3'- acGUGGCUUGUGc-UGUGCUggCGCAG- -5'
1204 5' -55.6 NC_001132.2 + 1621 0.76 0.459312
Target:  5'- -cUACCGGAaGCGACACG-CCGUGUCa -3'
miRNA:   3'- acGUGGCUUgUGCUGUGCuGGCGCAG- -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.