miRNA display CGI


Results 1 - 18 of 18 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
29248 3' -51.3 NC_006150.1 + 195934 0.66 0.997236
Target:  5'- uCCGCUgaaccauACGUGGGaaaaGGCUAUGuGUAuGACg -3'
miRNA:   3'- -GGUGG-------UGUACUC----CCGAUACuCAU-CUG- -5'
29248 3' -51.3 NC_006150.1 + 11158 0.66 0.996797
Target:  5'- aCACUACAUucuGGCUAUGAGUAa-- -3'
miRNA:   3'- gGUGGUGUAcucCCGAUACUCAUcug -5'
29248 3' -51.3 NC_006150.1 + 5409 0.66 0.996797
Target:  5'- gCACCugGguucucuggUGGGGGggG-GGGUAGACa -3'
miRNA:   3'- gGUGGugU---------ACUCCCgaUaCUCAUCUG- -5'
29248 3' -51.3 NC_006150.1 + 104921 0.66 0.996639
Target:  5'- gUCACCACAUGccgugggugugugcAGGGCUuUGGcugAGGCc -3'
miRNA:   3'- -GGUGGUGUAC--------------UCCCGAuACUca-UCUG- -5'
29248 3' -51.3 NC_006150.1 + 63449 0.66 0.996244
Target:  5'- gCCGCCGUggGAGGcGCUGgaGGUGGAUu -3'
miRNA:   3'- -GGUGGUGuaCUCC-CGAUacUCAUCUG- -5'
29248 3' -51.3 NC_006150.1 + 88167 0.66 0.995547
Target:  5'- cCCACCGaggcugcgaggccCcgGuGGGCggggGGGUGGGCg -3'
miRNA:   3'- -GGUGGU-------------GuaCuCCCGaua-CUCAUCUG- -5'
29248 3' -51.3 NC_006150.1 + 219699 0.67 0.994826
Target:  5'- cUCAUCagacuuucguucaGCGUGgcauuuGGGGCUGUGAGU-GACa -3'
miRNA:   3'- -GGUGG-------------UGUAC------UCCCGAUACUCAuCUG- -5'
29248 3' -51.3 NC_006150.1 + 80854 0.67 0.994098
Target:  5'- uCCACCACAUcGGGGUUGUcucuguaucGAGUGcGGu -3'
miRNA:   3'- -GGUGGUGUAcUCCCGAUA---------CUCAU-CUg -5'
29248 3' -51.3 NC_006150.1 + 90484 0.68 0.988425
Target:  5'- aCUGCgCACAUGGGGGgaAaGAG-AGGCa -3'
miRNA:   3'- -GGUG-GUGUACUCCCgaUaCUCaUCUG- -5'
29248 3' -51.3 NC_006150.1 + 106822 0.68 0.986901
Target:  5'- aCUGCCugGUugcgGAGGGCg--GGGUAcGACg -3'
miRNA:   3'- -GGUGGugUA----CUCCCGauaCUCAU-CUG- -5'
29248 3' -51.3 NC_006150.1 + 215359 0.69 0.975358
Target:  5'- uCCACCACuccGAGGGUggaaaaggccagcUGGGUGGAa -3'
miRNA:   3'- -GGUGGUGua-CUCCCGau-----------ACUCAUCUg -5'
29248 3' -51.3 NC_006150.1 + 92907 0.69 0.973513
Target:  5'- uCCAgCCGCuugacggaaacgcaGUGGGGGCUAUGGGgcuuGAa -3'
miRNA:   3'- -GGU-GGUG--------------UACUCCCGAUACUCau--CUg -5'
29248 3' -51.3 NC_006150.1 + 107584 0.69 0.968618
Target:  5'- aCCACCACAUcaGAcGGGUgagacgucguUGUGGGU-GACg -3'
miRNA:   3'- -GGUGGUGUA--CU-CCCG----------AUACUCAuCUG- -5'
29248 3' -51.3 NC_006150.1 + 115728 0.7 0.950575
Target:  5'- aCGCC-CA--AGGGUUGUGGGUGGAg -3'
miRNA:   3'- gGUGGuGUacUCCCGAUACUCAUCUg -5'
29248 3' -51.3 NC_006150.1 + 84780 0.72 0.915393
Target:  5'- gUACCGCAgaUGAGGGCcagGUGAugAGGCg -3'
miRNA:   3'- gGUGGUGU--ACUCCCGa--UACUcaUCUG- -5'
29248 3' -51.3 NC_006150.1 + 98375 0.72 0.909393
Target:  5'- -aACCGCAUGGGGGUgguacuagGAGcaUAGACg -3'
miRNA:   3'- ggUGGUGUACUCCCGaua-----CUC--AUCUG- -5'
29248 3' -51.3 NC_006150.1 + 113012 0.73 0.883008
Target:  5'- -gACgCGCAUGGGGGCUAgguccuGUAGGCu -3'
miRNA:   3'- ggUG-GUGUACUCCCGAUacu---CAUCUG- -5'
29248 3' -51.3 NC_006150.1 + 180468 1.12 0.007483
Target:  5'- gCCACCACAUGAGGGCUAUGAGUAGACu -3'
miRNA:   3'- -GGUGGUGUACUCCCGAUACUCAUCUG- -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.