miRNA display CGI


Results 1 - 20 of 28 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
22956 5' -57.7 NC_005137.2 + 93668 1.1 0.001682
Target:  5'- cCGCCGGCCGCGUAGAUGCGCAACAGGc -3'
miRNA:   3'- -GCGGCCGGCGCAUCUACGCGUUGUCC- -5'
22956 5' -57.7 NC_005137.2 + 27880 0.74 0.398897
Target:  5'- gGuuGGCgauCGCGUGGcgGCGCcACGGGu -3'
miRNA:   3'- gCggCCG---GCGCAUCuaCGCGuUGUCC- -5'
22956 5' -57.7 NC_005137.2 + 112443 0.74 0.398897
Target:  5'- aGUCGGCCGU-UGGAcGCGgCGGCAGGa -3'
miRNA:   3'- gCGGCCGGCGcAUCUaCGC-GUUGUCC- -5'
22956 5' -57.7 NC_005137.2 + 100181 0.73 0.451535
Target:  5'- gCGUCGGaCCGCGUGcuUGCGCAccGCuGGa -3'
miRNA:   3'- -GCGGCC-GGCGCAUcuACGCGU--UGuCC- -5'
22956 5' -57.7 NC_005137.2 + 101156 0.73 0.451535
Target:  5'- uGUaCGGCCGCGguUGGAcagGCGUGGCAGGc -3'
miRNA:   3'- gCG-GCCGGCGC--AUCUa--CGCGUUGUCC- -5'
22956 5' -57.7 NC_005137.2 + 71362 0.71 0.527154
Target:  5'- uCGUCGGCCGCGUuGAcUGUcgGCGACGcGGc -3'
miRNA:   3'- -GCGGCCGGCGCAuCU-ACG--CGUUGU-CC- -5'
22956 5' -57.7 NC_005137.2 + 4600 0.7 0.576747
Target:  5'- aCGaCGG-CGCGaAGGUGCGCGACGcGGg -3'
miRNA:   3'- -GCgGCCgGCGCaUCUACGCGUUGU-CC- -5'
22956 5' -57.7 NC_005137.2 + 35672 0.7 0.576747
Target:  5'- gGCCGGCCggaacgauuGCGUAGAcgugGUGguGCuGGg -3'
miRNA:   3'- gCGGCCGG---------CGCAUCUa---CGCguUGuCC- -5'
22956 5' -57.7 NC_005137.2 + 116793 0.7 0.600942
Target:  5'- uGCCaacacuaacaaucauGGCUGCGUguuGGcagGCGCGGCAGGc -3'
miRNA:   3'- gCGG---------------CCGGCGCA---UCua-CGCGUUGUCC- -5'
22956 5' -57.7 NC_005137.2 + 128548 0.7 0.627297
Target:  5'- uGCUGGCgGCGUuucAUGCuuGACAGGu -3'
miRNA:   3'- gCGGCCGgCGCAuc-UACGcgUUGUCC- -5'
22956 5' -57.7 NC_005137.2 + 110597 0.69 0.637447
Target:  5'- gCGCCGGCCGCG---GUGUGCAc---- -3'
miRNA:   3'- -GCGGCCGGCGCaucUACGCGUugucc -5'
22956 5' -57.7 NC_005137.2 + 122601 0.69 0.667842
Target:  5'- gCGCuCGGCCGacggaGUAGAccGCGCGcuGCAGc -3'
miRNA:   3'- -GCG-GCCGGCg----CAUCUa-CGCGU--UGUCc -5'
22956 5' -57.7 NC_005137.2 + 10880 0.69 0.677928
Target:  5'- uGCUGGCCgacGCGUGcgcGAUGCGguGCAc- -3'
miRNA:   3'- gCGGCCGG---CGCAU---CUACGCguUGUcc -5'
22956 5' -57.7 NC_005137.2 + 98749 0.68 0.687976
Target:  5'- uGCuuaCGGCgcuuUGCG-AGGUGCGCAACAGu -3'
miRNA:   3'- gCG---GCCG----GCGCaUCUACGCGUUGUCc -5'
22956 5' -57.7 NC_005137.2 + 96432 0.68 0.707928
Target:  5'- gCGCCcGCCGCGU---UGCGUuugcGCGGGu -3'
miRNA:   3'- -GCGGcCGGCGCAucuACGCGu---UGUCC- -5'
22956 5' -57.7 NC_005137.2 + 50089 0.68 0.717813
Target:  5'- gCGCCuccacGGCCGCGcaaAUGCGCGugAGc -3'
miRNA:   3'- -GCGG-----CCGGCGCaucUACGCGUugUCc -5'
22956 5' -57.7 NC_005137.2 + 109007 0.67 0.765042
Target:  5'- aCGCUGGUcaucgcgauaacgCGCGUGGGUugGCuaCAGCAGGa -3'
miRNA:   3'- -GCGGCCG-------------GCGCAUCUA--CGc-GUUGUCC- -5'
22956 5' -57.7 NC_005137.2 + 26517 0.67 0.76598
Target:  5'- gCGCUGGCUGCGUuu-UGCGUGcCGGu -3'
miRNA:   3'- -GCGGCCGGCGCAucuACGCGUuGUCc -5'
22956 5' -57.7 NC_005137.2 + 59564 0.67 0.775298
Target:  5'- gCGCUGGCCGUGUucagccuGGUGUaCGACAa- -3'
miRNA:   3'- -GCGGCCGGCGCAu------CUACGcGUUGUcc -5'
22956 5' -57.7 NC_005137.2 + 3623 0.67 0.793548
Target:  5'- uGUCGGCCGCGcugAGGUuGCGUuuCAa- -3'
miRNA:   3'- gCGGCCGGCGCa--UCUA-CGCGuuGUcc -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.