miRNA display CGI


Results 1 - 20 of 53 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
8658 3' -50.4 NC_002229.2 + 323 0.66 0.997288
Target:  5'- uGUnuGCC-GUAGCUAUuGGCg-GCGGg -3'
miRNA:   3'- gCGg-CGGuUAUCGAUG-CCGunUGUCg -5'
8658 3' -50.4 NC_002229.2 + 138389 0.66 0.997288
Target:  5'- uGUnuGCC-GUAGCUAUuGGCg-GCGGg -3'
miRNA:   3'- gCGg-CGGuUAUCGAUG-CCGunUGUCg -5'
8658 3' -50.4 NC_002229.2 + 78334 0.66 0.996792
Target:  5'- aGCCGgCGGaGGUUugGGCuuggaAGCc -3'
miRNA:   3'- gCGGCgGUUaUCGAugCCGunug-UCG- -5'
8658 3' -50.4 NC_002229.2 + 155260 0.66 0.996224
Target:  5'- aGCUuGUgGAUAGUUGgGGCg-GCAGa -3'
miRNA:   3'- gCGG-CGgUUAUCGAUgCCGunUGUCg -5'
8658 3' -50.4 NC_002229.2 + 75025 0.66 0.994838
Target:  5'- aGCUGCCAAcucuguagGGCgguUGGCc-AUGGCc -3'
miRNA:   3'- gCGGCGGUUa-------UCGau-GCCGunUGUCG- -5'
8658 3' -50.4 NC_002229.2 + 146687 0.67 0.994005
Target:  5'- cCGuuGCCAAacGaucccagaGGCAgaGCAGCg -3'
miRNA:   3'- -GCggCGGUUauCgaug----CCGUn-UGUCG- -5'
8658 3' -50.4 NC_002229.2 + 18916 0.67 0.993916
Target:  5'- uGaCCGCCAAUaaaauauuuuuuaAGCU-CGGgGggAUGGCa -3'
miRNA:   3'- gC-GGCGGUUA-------------UCGAuGCCgUn-UGUCG- -5'
8658 3' -50.4 NC_002229.2 + 655 0.67 0.993455
Target:  5'- gCGCCGUgGGgcGCgcggACGGCGucgcucccacacgcGCGGCc -3'
miRNA:   3'- -GCGGCGgUUauCGa---UGCCGUn-------------UGUCG- -5'
8658 3' -50.4 NC_002229.2 + 138057 0.67 0.993455
Target:  5'- gCGCCGUgGGgcGCgcggACGGCGucgcucccacacgcGCGGCc -3'
miRNA:   3'- -GCGGCGgUUauCGa---UGCCGUn-------------UGUCG- -5'
8658 3' -50.4 NC_002229.2 + 743 0.67 0.989533
Target:  5'- -cCCGCCGA-GGCUGacagaGGCGaacucuucGCGGCg -3'
miRNA:   3'- gcGGCGGUUaUCGAUg----CCGUn-------UGUCG- -5'
8658 3' -50.4 NC_002229.2 + 137968 0.67 0.989533
Target:  5'- -cCCGCCGA-GGCUGacagaGGCGaacucuucGCGGCg -3'
miRNA:   3'- gcGGCGGUUaUCGAUg----CCGUn-------UGUCG- -5'
8658 3' -50.4 NC_002229.2 + 18166 0.68 0.988681
Target:  5'- gCGCCuGCCGAUAuuucauGCUAUGGCucaacuagacuugACAGg -3'
miRNA:   3'- -GCGG-CGGUUAU------CGAUGCCGun-----------UGUCg -5'
8658 3' -50.4 NC_002229.2 + 165928 0.68 0.988085
Target:  5'- cCGuuGCCAAacgaucccAGUa--GGCAgaGCAGCg -3'
miRNA:   3'- -GCggCGGUUa-------UCGaugCCGUn-UGUCG- -5'
8658 3' -50.4 NC_002229.2 + 106628 0.68 0.988085
Target:  5'- aCGauaUGCCAuuGUGGCUAUGuuGCAaGCAGa -3'
miRNA:   3'- -GCg--GCGGU--UAUCGAUGC--CGUnUGUCg -5'
8658 3' -50.4 NC_002229.2 + 153369 0.68 0.986486
Target:  5'- uGCUGCauuccccuUAGUAGCgACGGCAcgACAu- -3'
miRNA:   3'- gCGGCG--------GUUAUCGaUGCCGUn-UGUcg -5'
8658 3' -50.4 NC_002229.2 + 139270 0.68 0.984728
Target:  5'- uGCCGCCAAacuuguGCcaaACGGaCGggUAGCg -3'
miRNA:   3'- gCGGCGGUUau----CGa--UGCC-GUnuGUCG- -5'
8658 3' -50.4 NC_002229.2 + 173344 0.68 0.984728
Target:  5'- uGCCGCCAAacuuguGCcaaACGGaCGggUAGCg -3'
miRNA:   3'- gCGGCGGUUau----CGa--UGCC-GUnuGUCG- -5'
8658 3' -50.4 NC_002229.2 + 166913 0.68 0.982801
Target:  5'- gGCCGCgGAgAGCgcaGGag-GCAGCg -3'
miRNA:   3'- gCGGCGgUUaUCGaugCCgunUGUCG- -5'
8658 3' -50.4 NC_002229.2 + 84206 0.68 0.982801
Target:  5'- aCGUCGCUcg-AGCUgGCGGUa-AguGCu -3'
miRNA:   3'- -GCGGCGGuuaUCGA-UGCCGunUguCG- -5'
8658 3' -50.4 NC_002229.2 + 43736 0.69 0.978404
Target:  5'- cCGUCgGCCGAUauaugaaugAGUggGCGGCAauCAGUa -3'
miRNA:   3'- -GCGG-CGGUUA---------UCGa-UGCCGUnuGUCG- -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.