miRNA display CGI


Results 1 - 20 of 66 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
21425 3' -50.3 NC_004812.1 + 88942 0.66 0.997547
Target:  5'- cCGCCGgugGCgAgGAGGGCGcGGCCGg -3'
miRNA:   3'- -GUGGUacaUGaUgUUCCUGCaCUGGC- -5'
21425 3' -50.3 NC_004812.1 + 18053 0.66 0.997091
Target:  5'- gCACCAgcagcgagGCguucACGAGGGCGUGgGCCa -3'
miRNA:   3'- -GUGGUaca-----UGa---UGUUCCUGCAC-UGGc -5'
21425 3' -50.3 NC_004812.1 + 62707 0.66 0.997091
Target:  5'- gCGCCA-GUACUuuuacaugaACAAGGcCGaggugGACCGg -3'
miRNA:   3'- -GUGGUaCAUGA---------UGUUCCuGCa----CUGGC- -5'
21425 3' -50.3 NC_004812.1 + 54602 0.66 0.997091
Target:  5'- uCGgCGUG-GCcGCGGGGACGggcggGGCCGg -3'
miRNA:   3'- -GUgGUACaUGaUGUUCCUGCa----CUGGC- -5'
21425 3' -50.3 NC_004812.1 + 67285 0.66 0.997091
Target:  5'- -uCCAUcGUACgcgGCGGGGGCGgGAgCGg -3'
miRNA:   3'- guGGUA-CAUGa--UGUUCCUGCaCUgGC- -5'
21425 3' -50.3 NC_004812.1 + 10693 0.66 0.997091
Target:  5'- uCACCAgGUAC-ACGGGGGCGU--CCa -3'
miRNA:   3'- -GUGGUaCAUGaUGUUCCUGCAcuGGc -5'
21425 3' -50.3 NC_004812.1 + 47397 0.66 0.996568
Target:  5'- gUACUcgcggAUGUucaGCUGCGcgcGGACGUGGCUGa -3'
miRNA:   3'- -GUGG-----UACA---UGAUGUu--CCUGCACUGGC- -5'
21425 3' -50.3 NC_004812.1 + 114671 0.66 0.996568
Target:  5'- cCACCggGUcGCggucCAGGGGCGgccgcggGACCGg -3'
miRNA:   3'- -GUGGuaCA-UGau--GUUCCUGCa------CUGGC- -5'
21425 3' -50.3 NC_004812.1 + 98110 0.66 0.996511
Target:  5'- gGCCAUGUACUACAuGGccaaccagauccuGCGcuacugcGACCa -3'
miRNA:   3'- gUGGUACAUGAUGUuCC-------------UGCa------CUGGc -5'
21425 3' -50.3 NC_004812.1 + 112621 0.66 0.995969
Target:  5'- gGCCAUGUGC-ACcuccGACGUGGCgGu -3'
miRNA:   3'- gUGGUACAUGaUGuuc-CUGCACUGgC- -5'
21425 3' -50.3 NC_004812.1 + 85449 0.66 0.995969
Target:  5'- gACCAggagcUGUGCUGCGuGuACGUGAUCa -3'
miRNA:   3'- gUGGU-----ACAUGAUGUuCcUGCACUGGc -5'
21425 3' -50.3 NC_004812.1 + 32294 0.66 0.995707
Target:  5'- gGCCGUGaGCUGCuccucgggggagauGGGGGCGUcgucaccGGCCGc -3'
miRNA:   3'- gUGGUACaUGAUG--------------UUCCUGCA-------CUGGC- -5'
21425 3' -50.3 NC_004812.1 + 81080 0.66 0.995287
Target:  5'- cCGCCucgacgcGCUGCGGgcGGACGUGcACCGg -3'
miRNA:   3'- -GUGGuaca---UGAUGUU--CCUGCAC-UGGC- -5'
21425 3' -50.3 NC_004812.1 + 33458 0.66 0.994514
Target:  5'- uCACCAUGgacggcgccCUGCGGcGGACGgccGACCu -3'
miRNA:   3'- -GUGGUACau-------GAUGUU-CCUGCa--CUGGc -5'
21425 3' -50.3 NC_004812.1 + 41499 0.66 0.994514
Target:  5'- gCGCCGUGccUGCUGCuc-GACGcUGACCc -3'
miRNA:   3'- -GUGGUAC--AUGAUGuucCUGC-ACUGGc -5'
21425 3' -50.3 NC_004812.1 + 102399 0.66 0.994514
Target:  5'- gCGCCcccGUGCccuuCGAGGAgGUGAUCGa -3'
miRNA:   3'- -GUGGua-CAUGau--GUUCCUgCACUGGC- -5'
21425 3' -50.3 NC_004812.1 + 87820 0.67 0.993642
Target:  5'- aACCAagc-CUGCGGcccacGGGCGUGACCGu -3'
miRNA:   3'- gUGGUacauGAUGUU-----CCUGCACUGGC- -5'
21425 3' -50.3 NC_004812.1 + 88356 0.67 0.993642
Target:  5'- gGCCcUGg---ACGAGGACGUcgaGGCCGa -3'
miRNA:   3'- gUGGuACaugaUGUUCCUGCA---CUGGC- -5'
21425 3' -50.3 NC_004812.1 + 16628 0.67 0.993642
Target:  5'- gACCAcGaAC-GCGAGGGCGUGGgCGg -3'
miRNA:   3'- gUGGUaCaUGaUGUUCCUGCACUgGC- -5'
21425 3' -50.3 NC_004812.1 + 42661 0.67 0.992662
Target:  5'- uGCCGUGcACgUACAGGGGggcgaugaUGUGGCUGg -3'
miRNA:   3'- gUGGUACaUG-AUGUUCCU--------GCACUGGC- -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.