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
23154 3' -54.2 NC_005178.1 + 31451 0.66 0.654595
Target:  5'- uGCUCCAGgAACcGCuGGcgGCcggcucGCUGa -3'
miRNA:   3'- gCGAGGUCgUUGuUGuCCuaCG------CGAC- -5'
23154 3' -54.2 NC_005178.1 + 2446 0.66 0.654595
Target:  5'- gGCcgCCAGCGGCAGCucGGcgGCGa-- -3'
miRNA:   3'- gCGa-GGUCGUUGUUGu-CCuaCGCgac -5'
23154 3' -54.2 NC_005178.1 + 20559 0.66 0.643064
Target:  5'- aGCUCCAG-GGC--CAGGucgcgGCGCUGa -3'
miRNA:   3'- gCGAGGUCgUUGuuGUCCua---CGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 34409 0.66 0.619979
Target:  5'- -uCUCCAGCAgugcauggGCAGCGcGGGcgcUGCGCUu -3'
miRNA:   3'- gcGAGGUCGU--------UGUUGU-CCU---ACGCGAc -5'
23154 3' -54.2 NC_005178.1 + 21782 0.66 0.619979
Target:  5'- aCGCcagCCAgGCGGCGgcgaagGCAGGuuaugGCGCUGc -3'
miRNA:   3'- -GCGa--GGU-CGUUGU------UGUCCua---CGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 29137 0.66 0.59694
Target:  5'- uGCaUCAGCcuggggUAACAGGAaGCGCUGa -3'
miRNA:   3'- gCGaGGUCGuu----GUUGUCCUaCGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 34588 0.66 0.59694
Target:  5'- gCGCUCgGGCGGCcGCgAGGAU-CGCg- -3'
miRNA:   3'- -GCGAGgUCGUUGuUG-UCCUAcGCGac -5'
23154 3' -54.2 NC_005178.1 + 5661 0.66 0.59694
Target:  5'- gCGCcaucCCGGCGACGucggucacGCGGGGaaucGCGCUGc -3'
miRNA:   3'- -GCGa---GGUCGUUGU--------UGUCCUa---CGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 19988 0.67 0.582031
Target:  5'- gGCaCCGGCAguuguagccauucgGCGGCAuGAUGUGCUGc -3'
miRNA:   3'- gCGaGGUCGU--------------UGUUGUcCUACGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 24968 0.67 0.574033
Target:  5'- gCGCUCCAG--GCGGCcgucGAUGCGUUGc -3'
miRNA:   3'- -GCGAGGUCguUGUUGuc--CUACGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 19438 0.67 0.540088
Target:  5'- aCGCUCCcacAGCAccAUGGCGGGcugggccagGCGCUGc -3'
miRNA:   3'- -GCGAGG---UCGU--UGUUGUCCua-------CGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 26930 0.68 0.528918
Target:  5'- gCGCcCCGGCuuaGugGACAGGGUGgauUGCUGc -3'
miRNA:   3'- -GCGaGGUCG---UugUUGUCCUAC---GCGAC- -5'
23154 3' -54.2 NC_005178.1 + 30401 0.68 0.521151
Target:  5'- aCGCuuUCCAGCAgcgcaucGCGACGGGGUuguucagcggcgccgGcCGCUGg -3'
miRNA:   3'- -GCG--AGGUCGU-------UGUUGUCCUA---------------C-GCGAC- -5'
23154 3' -54.2 NC_005178.1 + 33537 0.68 0.517835
Target:  5'- -aCUCCAguucGCAGCGGCGGacGGUGCGCa- -3'
miRNA:   3'- gcGAGGU----CGUUGUUGUC--CUACGCGac -5'
23154 3' -54.2 NC_005178.1 + 16769 0.68 0.506846
Target:  5'- aCGCUaCC-GCGAU--CAGGAaGCGCUGg -3'
miRNA:   3'- -GCGA-GGuCGUUGuuGUCCUaCGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 4483 0.68 0.506846
Target:  5'- cCGC-CCAGCGcuacCGGCAGuGGUGCgaGCUGg -3'
miRNA:   3'- -GCGaGGUCGUu---GUUGUC-CUACG--CGAC- -5'
23154 3' -54.2 NC_005178.1 + 1147 0.68 0.495957
Target:  5'- cCGUUCCA-CGGCGAgAGGAacGUGCUGg -3'
miRNA:   3'- -GCGAGGUcGUUGUUgUCCUa-CGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 28014 0.68 0.495957
Target:  5'- uCGCUCguuGGCGuucccGCGcCAGGcgGCGCUGg -3'
miRNA:   3'- -GCGAGg--UCGU-----UGUuGUCCuaCGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 24369 0.69 0.462909
Target:  5'- gGCUCCAGCAccuCGGCGaaugccuGGgcGUGCUGc -3'
miRNA:   3'- gCGAGGUCGUu--GUUGU-------CCuaCGCGAC- -5'
23154 3' -54.2 NC_005178.1 + 30225 0.69 0.443234
Target:  5'- gGCUCCAgGCGAUGAaggcGGAcccccaUGCGCUGg -3'
miRNA:   3'- gCGAGGU-CGUUGUUgu--CCU------ACGCGAC- -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.