miRNA display CGI


Results 1 - 20 of 89 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
21721 3' -55.2 NC_004812.1 + 842 0.66 0.940528
Target:  5'- gGGUGGCCGGggGUCcu--GGgGUCCUGg -3'
miRNA:   3'- -CCACCGGCUa-CAGcuguCUgUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 875 0.68 0.889499
Target:  5'- uGGgGGuCCGggGUCGcCGGGgGUCCUGg -3'
miRNA:   3'- -CCaCC-GGCuaCAGCuGUCUgUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 901 0.68 0.889499
Target:  5'- nGGgGGuCCGggGUCGcCGGGgGUCCUGg -3'
miRNA:   3'- -CCaCC-GGCuaCAGCuGUCUgUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 927 0.68 0.889499
Target:  5'- nGGgGGuCCGggGUCGcCGGGgGUCCUGg -3'
miRNA:   3'- -CCaCC-GGCuaCAGCuGUCUgUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 953 0.68 0.889499
Target:  5'- nGGgGGuCCGggGUCGcCGGGgGUCCUGg -3'
miRNA:   3'- -CCaCC-GGCuaCAGCuGUCUgUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 1260 0.67 0.920173
Target:  5'- --cGGCUGAcUG-CGACGGGCAgaUUCCGg -3'
miRNA:   3'- ccaCCGGCU-ACaGCUGUCUGU--AGGGC- -5'
21721 3' -55.2 NC_004812.1 + 4387 0.69 0.820792
Target:  5'- -cUGGCCGAggcGUCGcCcgGGugGUCCCGc -3'
miRNA:   3'- ccACCGGCUa--CAGCuG--UCugUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 5905 0.72 0.67937
Target:  5'- aGG-GGCCGccGggCGGCAGGCAgacCCCGg -3'
miRNA:   3'- -CCaCCGGCuaCa-GCUGUCUGUa--GGGC- -5'
21721 3' -55.2 NC_004812.1 + 6841 0.67 0.914499
Target:  5'- cGGcGGCCcucGcgGUCGGCgAGGCggCCCGc -3'
miRNA:   3'- -CCaCCGG---CuaCAGCUG-UCUGuaGGGC- -5'
21721 3' -55.2 NC_004812.1 + 7801 0.66 0.942358
Target:  5'- --aGGCCGcggGagaagccuaccugucUCGGCGGGCGUCUCGg -3'
miRNA:   3'- ccaCCGGCua-C---------------AGCUGUCUGUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 13428 0.67 0.920173
Target:  5'- gGGUGGCCGucguuUCGGgGGACgccgugGUCUCGg -3'
miRNA:   3'- -CCACCGGCuac--AGCUgUCUG------UAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 15403 0.66 0.95336
Target:  5'- cGUGGCCGGggccGUCGAgcgcgccgcccCGGGCcUCCgGg -3'
miRNA:   3'- cCACCGGCUa---CAGCU-----------GUCUGuAGGgC- -5'
21721 3' -55.2 NC_004812.1 + 15958 0.72 0.699369
Target:  5'- --cGGCCGGg--CGACGGACGcCCCGc -3'
miRNA:   3'- ccaCCGGCUacaGCUGUCUGUaGGGC- -5'
21721 3' -55.2 NC_004812.1 + 16723 0.69 0.829191
Target:  5'- cGG-GGCCGGUcccgcucgcccGUCGACgcaGGGCGcCCCGg -3'
miRNA:   3'- -CCaCCGGCUA-----------CAGCUG---UCUGUaGGGC- -5'
21721 3' -55.2 NC_004812.1 + 17421 0.68 0.89609
Target:  5'- uGGUGGUgGGggcgGgggUGGCGGcCGUCCCGu -3'
miRNA:   3'- -CCACCGgCUa---Ca--GCUGUCuGUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 18816 0.69 0.832502
Target:  5'- cGG-GGCgGGUGUgCGGCGGGCGgcgguugcgcgccgCCCGg -3'
miRNA:   3'- -CCaCCGgCUACA-GCUGUCUGUa-------------GGGC- -5'
21721 3' -55.2 NC_004812.1 + 21130 0.67 0.930818
Target:  5'- aGGcGGCCGuGUGUggcgugccgCGGCGGGgGUCUCGg -3'
miRNA:   3'- -CCaCCGGC-UACA---------GCUGUCUgUAGGGC- -5'
21721 3' -55.2 NC_004812.1 + 23622 0.73 0.659219
Target:  5'- aGUGGCCGGgcgcccaGACGGGCGUCCgCGu -3'
miRNA:   3'- cCACCGGCUacag---CUGUCUGUAGG-GC- -5'
21721 3' -55.2 NC_004812.1 + 27178 0.69 0.845455
Target:  5'- --aGGCUGAaGUCGGCcaGGACggCCCGc -3'
miRNA:   3'- ccaCCGGCUaCAGCUG--UCUGuaGGGC- -5'
21721 3' -55.2 NC_004812.1 + 27515 0.67 0.925613
Target:  5'- gGGUGGCCacGAgcUCGGCGGuguacCAcUCCCGg -3'
miRNA:   3'- -CCACCGG--CUacAGCUGUCu----GU-AGGGC- -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.