miRNA display CGI


Results 1 - 20 of 30 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
29256 3' -52.2 NC_006150.1 + 70436 0.66 0.993195
Target:  5'- gGACCuGCGGCUUccugu-GCUCAACc -3'
miRNA:   3'- gCUGGuCGUCGAGcauguuCGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 203699 0.66 0.993195
Target:  5'- uGGCCAGUAGCUuuagUGUAUcAGCgUGACg -3'
miRNA:   3'- gCUGGUCGUCGA----GCAUGuUCGaGUUG- -5'
29256 3' -52.2 NC_006150.1 + 216646 0.66 0.992184
Target:  5'- uGACUGGUuGCUCGccguggcggcUGCGGuGCUCGGCa -3'
miRNA:   3'- gCUGGUCGuCGAGC----------AUGUU-CGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 170031 0.66 0.992184
Target:  5'- gCGGCUcGCGGCgccgauaccggCGUGCAGGCuUUGACu -3'
miRNA:   3'- -GCUGGuCGUCGa----------GCAUGUUCG-AGUUG- -5'
29256 3' -52.2 NC_006150.1 + 32957 0.66 0.992184
Target:  5'- cCGcCCGGCuccCUCGUGCGAGC--GACg -3'
miRNA:   3'- -GCuGGUCGuc-GAGCAUGUUCGagUUG- -5'
29256 3' -52.2 NC_006150.1 + 31857 0.66 0.991058
Target:  5'- -uGCCAGCuGGCUCcuuucccucUugGGGCUCGGCa -3'
miRNA:   3'- gcUGGUCG-UCGAGc--------AugUUCGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 70087 0.67 0.988425
Target:  5'- gGACUGGCGGUggcgcugCGUGgAGGCUUGAUu -3'
miRNA:   3'- gCUGGUCGUCGa------GCAUgUUCGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 107651 0.67 0.988425
Target:  5'- gCGAUCAGCGGaCUUGcUACuguGAGC-CGACg -3'
miRNA:   3'- -GCUGGUCGUC-GAGC-AUG---UUCGaGUUG- -5'
29256 3' -52.2 NC_006150.1 + 152294 0.67 0.988425
Target:  5'- aGGCCAGCAGCaccaccGCAGGCaauacCAGCa -3'
miRNA:   3'- gCUGGUCGUCGagca--UGUUCGa----GUUG- -5'
29256 3' -52.2 NC_006150.1 + 122394 0.67 0.986901
Target:  5'- uCGuCCAGCGGCgCGUcACcguGGCUCGGg -3'
miRNA:   3'- -GCuGGUCGUCGaGCA-UGu--UCGAGUUg -5'
29256 3' -52.2 NC_006150.1 + 154826 0.67 0.985227
Target:  5'- uGGCCcucGCGGCcgcCGUGCucaucGCUCAGCa -3'
miRNA:   3'- gCUGGu--CGUCGa--GCAUGuu---CGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 114753 0.67 0.983395
Target:  5'- uGAUuaaCGGCGGCuuugccucuUCGUACGAGCggucCAGCg -3'
miRNA:   3'- gCUG---GUCGUCG---------AGCAUGUUCGa---GUUG- -5'
29256 3' -52.2 NC_006150.1 + 117365 0.67 0.981396
Target:  5'- cCGACCGGCAGCc-------GCUCAACa -3'
miRNA:   3'- -GCUGGUCGUCGagcauguuCGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 76468 0.68 0.974316
Target:  5'- aGACUAGUu-CUCccaauUACAAGCUCAACa -3'
miRNA:   3'- gCUGGUCGucGAGc----AUGUUCGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 114304 0.68 0.974316
Target:  5'- aGACUgauGGCAGCU-GUGgGacGGCUCAGCc -3'
miRNA:   3'- gCUGG---UCGUCGAgCAUgU--UCGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 72259 0.68 0.974316
Target:  5'- cCGACCAGUuGUUCG-GCGGcCUCGGCa -3'
miRNA:   3'- -GCUGGUCGuCGAGCaUGUUcGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 170257 0.68 0.973513
Target:  5'- gCGACC-GUGGCUCGUGCucaccgccgaauguGAGCgCGGCc -3'
miRNA:   3'- -GCUGGuCGUCGAGCAUG--------------UUCGaGUUG- -5'
29256 3' -52.2 NC_006150.1 + 124060 0.68 0.971569
Target:  5'- gGACCAG-AGC-CGUgACGAGUUUGACa -3'
miRNA:   3'- gCUGGUCgUCGaGCA-UGUUCGAGUUG- -5'
29256 3' -52.2 NC_006150.1 + 181846 0.68 0.967692
Target:  5'- cCGugCAGCGuuuGCUuccuauguccgcaaCGUACAGGCUguGCa -3'
miRNA:   3'- -GCugGUCGU---CGA--------------GCAUGUUCGAguUG- -5'
29256 3' -52.2 NC_006150.1 + 126220 0.7 0.941735
Target:  5'- aGACguGCGGUcgucuUCGUGCGGGCcCGAUg -3'
miRNA:   3'- gCUGguCGUCG-----AGCAUGUUCGaGUUG- -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.