miRNA display CGI


Results 1 - 20 of 38 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
30782 5' -59.1 NC_006552.1 + 64645 0.66 0.608526
Target:  5'- aCGCUGUUc-GCCGCGC-CGcCGGUCa -3'
miRNA:   3'- gGUGGCAGucCGGCGCGuGC-GCUAGg -5'
30782 5' -59.1 NC_006552.1 + 61024 0.73 0.253286
Target:  5'- aCGCCGaacuugaUCAGG-CGCGCugGCGG-CCg -3'
miRNA:   3'- gGUGGC-------AGUCCgGCGCGugCGCUaGG- -5'
30782 5' -59.1 NC_006552.1 + 60234 0.69 0.412339
Target:  5'- aCACCGaacaguUCAuucgcaacgcGGCCGCGCGCGgGcuuUCCc -3'
miRNA:   3'- gGUGGC------AGU----------CCGGCGCGUGCgCu--AGG- -5'
30782 5' -59.1 NC_006552.1 + 59356 0.67 0.536452
Target:  5'- cCCGCCGcCGauGGCaGCGauCGCGCGAgCCa -3'
miRNA:   3'- -GGUGGCaGU--CCGgCGC--GUGCGCUaGG- -5'
30782 5' -59.1 NC_006552.1 + 56468 0.67 0.5466
Target:  5'- gCCGCCcuGUCAGGCaGgGCG-GCG-UCCa -3'
miRNA:   3'- -GGUGG--CAGUCCGgCgCGUgCGCuAGG- -5'
30782 5' -59.1 NC_006552.1 + 55967 0.68 0.46757
Target:  5'- uCCGCCGcuUCAccGGCCGCGC-CGaaggccuguCGAUCa -3'
miRNA:   3'- -GGUGGC--AGU--CCGGCGCGuGC---------GCUAGg -5'
30782 5' -59.1 NC_006552.1 + 54112 0.66 0.618955
Target:  5'- cCUACCG-CAGGCUcugGCGCAuCGUcuGAgcgCCg -3'
miRNA:   3'- -GGUGGCaGUCCGG---CGCGU-GCG--CUa--GG- -5'
30782 5' -59.1 NC_006552.1 + 50052 0.66 0.576348
Target:  5'- gCCACCGaaCAGGaaGCGCagucugcaaucgaGCGCGAcaaCCg -3'
miRNA:   3'- -GGUGGCa-GUCCggCGCG-------------UGCGCUa--GG- -5'
30782 5' -59.1 NC_006552.1 + 48448 0.67 0.51636
Target:  5'- aCUGCUGUCGucuGGCU-CGCugGCGuGUCCg -3'
miRNA:   3'- -GGUGGCAGU---CCGGcGCGugCGC-UAGG- -5'
30782 5' -59.1 NC_006552.1 + 41115 0.7 0.394843
Target:  5'- aUCACC-UUA-GCCGCGU-CGCGGUCCu -3'
miRNA:   3'- -GGUGGcAGUcCGGCGCGuGCGCUAGG- -5'
30782 5' -59.1 NC_006552.1 + 41043 0.66 0.587731
Target:  5'- gCgGCCGUaGGGaaGCGCuCGCGGauuUCCu -3'
miRNA:   3'- -GgUGGCAgUCCggCGCGuGCGCU---AGG- -5'
30782 5' -59.1 NC_006552.1 + 39540 0.65 0.626261
Target:  5'- gUCGCCGUUcGGCgucacccgccagucUGUGCGCGUGAcagCCu -3'
miRNA:   3'- -GGUGGCAGuCCG--------------GCGCGUGCGCUa--GG- -5'
30782 5' -59.1 NC_006552.1 + 38752 0.69 0.448724
Target:  5'- aCCACUGuUCAGGCUGUccuGCGCGUacUUCa -3'
miRNA:   3'- -GGUGGC-AGUCCGGCG---CGUGCGcuAGG- -5'
30782 5' -59.1 NC_006552.1 + 38381 0.69 0.430306
Target:  5'- cCCACCaggGUCcGGCCG-GCGCGgaaguuguccaUGAUCCg -3'
miRNA:   3'- -GGUGG---CAGuCCGGCgCGUGC-----------GCUAGG- -5'
30782 5' -59.1 NC_006552.1 + 34159 0.67 0.536452
Target:  5'- gCCAgaGcCuGGCCGCccagcagcaGgGCGCGGUCCa -3'
miRNA:   3'- -GGUggCaGuCCGGCG---------CgUGCGCUAGG- -5'
30782 5' -59.1 NC_006552.1 + 33553 0.67 0.52637
Target:  5'- gCgGCCGacagcagCAGGCCaGCGCcgaaauACGCGGcgUCCu -3'
miRNA:   3'- -GgUGGCa------GUCCGG-CGCG------UGCGCU--AGG- -5'
30782 5' -59.1 NC_006552.1 + 31883 0.68 0.486815
Target:  5'- -aGCCGUgAaagcggcuucGGCCaGCGCGgCGCGGUUCg -3'
miRNA:   3'- ggUGGCAgU----------CCGG-CGCGU-GCGCUAGG- -5'
30782 5' -59.1 NC_006552.1 + 31398 0.68 0.476183
Target:  5'- gCACCGUC-GGCgGCGC-CGCcagugguGGUCUu -3'
miRNA:   3'- gGUGGCAGuCCGgCGCGuGCG-------CUAGG- -5'
30782 5' -59.1 NC_006552.1 + 29804 0.66 0.618955
Target:  5'- uUCGCCGgCGGGCCGCcacccaGCGUGAc-- -3'
miRNA:   3'- -GGUGGCaGUCCGGCGcg----UGCGCUagg -5'
30782 5' -59.1 NC_006552.1 + 26547 0.66 0.598116
Target:  5'- uCCAgCGUCAGG-CGCucgGCcUGCGcgCCa -3'
miRNA:   3'- -GGUgGCAGUCCgGCG---CGuGCGCuaGG- -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.