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
8640 3' -50.4 NC_002229.2 + 125 1.12 0.006727
Target:  5'- cCGCCGCCAAUAGCUACGGCAnACAGCc -3'
miRNA:   3'- -GCGGCGGUUAUCGAUGCCGUnUGUCG- -5'
8640 3' -50.4 NC_002229.2 + 151 0.86 0.249029
Target:  5'- -cCCgGCCAAUAGCUACGcGCAgACAGCc -3'
miRNA:   3'- gcGG-CGGUUAUCGAUGC-CGUnUGUCG- -5'
8640 3' -50.4 NC_002229.2 + 323 0.66 0.997288
Target:  5'- uGUnuGCC-GUAGCUAUuGGCg-GCGGg -3'
miRNA:   3'- gCGg-CGGuUAUCGAUG-CCGunUGUCg -5'
8640 3' -50.4 NC_002229.2 + 655 0.67 0.993455
Target:  5'- gCGCCGUgGGgcGCgcggACGGCGucgcucccacacgcGCGGCc -3'
miRNA:   3'- -GCGGCGgUUauCGa---UGCCGUn-------------UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 743 0.67 0.989533
Target:  5'- -cCCGCCGA-GGCUGacagaGGCGaacucuucGCGGCg -3'
miRNA:   3'- gcGGCGGUUaUCGAUg----CCGUn-------UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 817 0.69 0.973227
Target:  5'- gCGCCGCUcggGGCUAcCGGgGuccguccGCGGCc -3'
miRNA:   3'- -GCGGCGGuuaUCGAU-GCCgUn------UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 1003 0.72 0.891143
Target:  5'- aCGUgGCCcuggGGCUugGGCugagcGCAGUg -3'
miRNA:   3'- -GCGgCGGuua-UCGAugCCGun---UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 1024 0.75 0.801116
Target:  5'- gGCCGCggacggacccCGGUAGCcccgaGCGGCGccCAGCg -3'
miRNA:   3'- gCGGCG----------GUUAUCGa----UGCCGUnuGUCG- -5'
8640 3' -50.4 NC_002229.2 + 7831 0.7 0.952418
Target:  5'- uGCCGCCAGcUAGUUGagaaGCGcACAGa -3'
miRNA:   3'- gCGGCGGUU-AUCGAUgc--CGUnUGUCg -5'
8640 3' -50.4 NC_002229.2 + 14175 0.7 0.948117
Target:  5'- cCGCCggGCCAAcAGg-AUGGCAucgGCAGCu -3'
miRNA:   3'- -GCGG--CGGUUaUCgaUGCCGUn--UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 18166 0.68 0.988681
Target:  5'- gCGCCuGCCGAUAuuucauGCUAUGGCucaacuagacuugACAGg -3'
miRNA:   3'- -GCGG-CGGUUAU------CGAUGCCGun-----------UGUCg -5'
8640 3' -50.4 NC_002229.2 + 18462 0.71 0.943566
Target:  5'- gGCUGCCAgagGUGGUU-CGGCGcAUcGCu -3'
miRNA:   3'- gCGGCGGU---UAUCGAuGCCGUnUGuCG- -5'
8640 3' -50.4 NC_002229.2 + 18916 0.67 0.993916
Target:  5'- uGaCCGCCAAUaaaauauuuuuuaAGCU-CGGgGggAUGGCa -3'
miRNA:   3'- gC-GGCGGUUA-------------UCGAuGCCgUn-UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 43736 0.69 0.978404
Target:  5'- cCGUCgGCCGAUauaugaaugAGUggGCGGCAauCAGUa -3'
miRNA:   3'- -GCGG-CGGUUA---------UCGa-UGCCGUnuGUCG- -5'
8640 3' -50.4 NC_002229.2 + 49275 0.74 0.834176
Target:  5'- uGUCGCguucauaugaacgaCAAUgAGCUugGGUAuuGCAGCu -3'
miRNA:   3'- gCGGCG--------------GUUA-UCGAugCCGUn-UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 59562 0.75 0.766791
Target:  5'- aCGCCGgCAucacuggugcgguguAUaccAGCUACGGCGc-UAGCa -3'
miRNA:   3'- -GCGGCgGU---------------UA---UCGAUGCCGUnuGUCG- -5'
8640 3' -50.4 NC_002229.2 + 63628 0.7 0.963862
Target:  5'- uGCaGCCGAUAGaUUACuuuuagggGGUAggGCAGCg -3'
miRNA:   3'- gCGgCGGUUAUC-GAUG--------CCGUn-UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 68306 0.69 0.973227
Target:  5'- gCGUCGCauauauAUAGCUAuCGGUccGCcGCa -3'
miRNA:   3'- -GCGGCGgu----UAUCGAU-GCCGunUGuCG- -5'
8640 3' -50.4 NC_002229.2 + 71174 0.74 0.845173
Target:  5'- gGCCGCCugcuGCUuauccagaagaACGGCAaucucgucGCAGCu -3'
miRNA:   3'- gCGGCGGuuauCGA-----------UGCCGUn-------UGUCG- -5'
8640 3' -50.4 NC_002229.2 + 75025 0.66 0.994838
Target:  5'- aGCUGCCAAcucuguagGGCgguUGGCc-AUGGCc -3'
miRNA:   3'- gCGGCGGUUa-------UCGau-GCCGunUGUCG- -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.