miRNA display CGI


Results 1 - 20 of 52 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
29811 3' -47.6 NC_006273.1 + 137232 1.12 0.021206
Target:  5'- aCCAAAGGCUAAGUCGGAAAACUCGCGc -3'
miRNA:   3'- -GGUUUCCGAUUCAGCCUUUUGAGCGC- -5'
29811 3' -47.6 NC_006273.1 + 141097 0.67 0.999938
Target:  5'- gUggGGGgUAGGgCGGGAGGCagGCGg -3'
miRNA:   3'- gGuuUCCgAUUCaGCCUUUUGagCGC- -5'
29811 3' -47.6 NC_006273.1 + 173642 0.67 0.999954
Target:  5'- aCGAAGGCgc-GaCGGc--GCUCGCGg -3'
miRNA:   3'- gGUUUCCGauuCaGCCuuuUGAGCGC- -5'
29811 3' -47.6 NC_006273.1 + 186632 0.66 0.99999
Target:  5'- gCCAGAaGCUgcGAGcUCGGAcGGGCUCGUu -3'
miRNA:   3'- -GGUUUcCGA--UUC-AGCCU-UUUGAGCGc -5'
29811 3' -47.6 NC_006273.1 + 92172 0.73 0.983745
Target:  5'- gCAgcGGCaUGGGUCGGAAAGCagggugguaacauUCGCGc -3'
miRNA:   3'- gGUuuCCG-AUUCAGCCUUUUG-------------AGCGC- -5'
29811 3' -47.6 NC_006273.1 + 83352 0.71 0.997007
Target:  5'- cCCGgcGGCgccguGGUgGGAGGACcCGCGg -3'
miRNA:   3'- -GGUuuCCGau---UCAgCCUUUUGaGCGC- -5'
29811 3' -47.6 NC_006273.1 + 212559 0.7 0.998514
Target:  5'- uUCAAGcGGCaggucGGUUGGAGGACUUGCu -3'
miRNA:   3'- -GGUUU-CCGau---UCAGCCUUUUGAGCGc -5'
29811 3' -47.6 NC_006273.1 + 13820 0.69 0.999322
Target:  5'- aCCAGAuGGCgacgGAcGUCGGGAccGACggaCGCGa -3'
miRNA:   3'- -GGUUU-CCGa---UU-CAGCCUU--UUGa--GCGC- -5'
29811 3' -47.6 NC_006273.1 + 14137 0.69 0.999496
Target:  5'- uCCGAAcGCUAGGUCGGuucucAGACcgaggcaaaucaacgUCGCGa -3'
miRNA:   3'- -GGUUUcCGAUUCAGCCu----UUUG---------------AGCGC- -5'
29811 3' -47.6 NC_006273.1 + 129855 0.68 0.999825
Target:  5'- uCCcGAGGCac-GUCGGGGcuGugUCGCa -3'
miRNA:   3'- -GGuUUCCGauuCAGCCUU--UugAGCGc -5'
29811 3' -47.6 NC_006273.1 + 210661 0.69 0.99945
Target:  5'- aUCGAAGGUgggAAGUagCGGAuugcauugAGGCUCGCu -3'
miRNA:   3'- -GGUUUCCGa--UUCA--GCCU--------UUUGAGCGc -5'
29811 3' -47.6 NC_006273.1 + 111117 0.77 0.92726
Target:  5'- uUAAAGGCUGAGcCGGcccuCUCGCGc -3'
miRNA:   3'- gGUUUCCGAUUCaGCCuuuuGAGCGC- -5'
29811 3' -47.6 NC_006273.1 + 107015 0.68 0.999864
Target:  5'- uCCGAcuGGGCgaaaaaacGGUgauuaUGGAAAACUUGCGg -3'
miRNA:   3'- -GGUU--UCCGau------UCA-----GCCUUUUGAGCGC- -5'
29811 3' -47.6 NC_006273.1 + 19363 0.75 0.966134
Target:  5'- cCC--AGGCUcccuacccGUCGGAAGACUCGCc -3'
miRNA:   3'- -GGuuUCCGAuu------CAGCCUUUUGAGCGc -5'
29811 3' -47.6 NC_006273.1 + 200120 0.69 0.99945
Target:  5'- aCGAugcuGGUUAAGUUGGccGAGACgcugCGCGg -3'
miRNA:   3'- gGUUu---CCGAUUCAGCC--UUUUGa---GCGC- -5'
29811 3' -47.6 NC_006273.1 + 90328 0.67 0.999919
Target:  5'- cCCGc-GGCUAGGcCG--AGACUCGCGu -3'
miRNA:   3'- -GGUuuCCGAUUCaGCcuUUUGAGCGC- -5'
29811 3' -47.6 NC_006273.1 + 187783 0.66 0.999986
Target:  5'- gUAgcGGCUGGGUugcucgggcacgCGGAAAAcCUCGCc -3'
miRNA:   3'- gGUuuCCGAUUCA------------GCCUUUU-GAGCGc -5'
29811 3' -47.6 NC_006273.1 + 189145 0.74 0.979812
Target:  5'- aCUGAAGGUgaggGGGUCGcGgcGACUCGCa -3'
miRNA:   3'- -GGUUUCCGa---UUCAGC-CuuUUGAGCGc -5'
29811 3' -47.6 NC_006273.1 + 207337 0.71 0.997469
Target:  5'- --cGGGGCUGGGUggagaGGGAAGgUCGCGc -3'
miRNA:   3'- gguUUCCGAUUCAg----CCUUUUgAGCGC- -5'
29811 3' -47.6 NC_006273.1 + 57482 0.68 0.999646
Target:  5'- gCCGuGGuGCUGGGUcagugccagCGGGAAAC-CGCGg -3'
miRNA:   3'- -GGUuUC-CGAUUCA---------GCCUUUUGaGCGC- -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.