miRNA display CGI


Results 1 - 20 of 47 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
1355 3' -63.6 NC_001335.1 + 16289 1.08 0.000179
Target:  5'- aCGGCAGACCGGCCAGCAGACCGGCCAc -3'
miRNA:   3'- -GCCGUCUGGCCGGUCGUCUGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 44706 0.8 0.025485
Target:  5'- aGGCAGAUCGuCCAGCAGaACUGGCCGu -3'
miRNA:   3'- gCCGUCUGGCcGGUCGUC-UGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 5962 0.76 0.052818
Target:  5'- aGGCAGACCaGGCCcgAGCgggucGGGCUGGCCu -3'
miRNA:   3'- gCCGUCUGG-CCGG--UCG-----UCUGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 11513 0.76 0.054306
Target:  5'- gGGCAcGACCGGCCAGaagaucccgcacUGGACCGGCg- -3'
miRNA:   3'- gCCGU-CUGGCCGGUC------------GUCUGGCCGgu -5'
1355 3' -63.6 NC_001335.1 + 34415 0.73 0.086759
Target:  5'- uCGGUGGAgUGGCCAGCGGcCCGcuGCCGu -3'
miRNA:   3'- -GCCGUCUgGCCGGUCGUCuGGC--CGGU- -5'
1355 3' -63.6 NC_001335.1 + 16202 0.73 0.089158
Target:  5'- uCGGCAucguGGCCGGUCuGCuGGCCGGUCu -3'
miRNA:   3'- -GCCGU----CUGGCCGGuCGuCUGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 295 0.72 0.110744
Target:  5'- aGGCgcucaucuaaAGACCGGCCuugaaGGGCCGGUCAu -3'
miRNA:   3'- gCCG----------UCUGGCCGGucg--UCUGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 33897 0.72 0.110744
Target:  5'- uGGCGGcguucgugacGCCGGCCGGCaAGACCGaCUAc -3'
miRNA:   3'- gCCGUC----------UGGCCGGUCG-UCUGGCcGGU- -5'
1355 3' -63.6 NC_001335.1 + 32702 0.72 0.119715
Target:  5'- uCGGCGGugUugaccuuGGCCAGCAcgUCGGCCGg -3'
miRNA:   3'- -GCCGUCugG-------CCGGUCGUcuGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 38353 0.71 0.126629
Target:  5'- gGGCuGGCCGGCCgAGCGGAacuaagccguUCGGUCu -3'
miRNA:   3'- gCCGuCUGGCCGG-UCGUCU----------GGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 22606 0.71 0.129704
Target:  5'- uGGCAGA-CGaGUUAGCAGacgugguGCCGGCCAg -3'
miRNA:   3'- gCCGUCUgGC-CGGUCGUC-------UGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 17542 0.71 0.13005
Target:  5'- uGGCc-AUCGGCCuGCAGGCCGGUa- -3'
miRNA:   3'- gCCGucUGGCCGGuCGUCUGGCCGgu -5'
1355 3' -63.6 NC_001335.1 + 31064 0.71 0.13005
Target:  5'- -uGCGGuuCGGCCGGCucGGGCCGGUCu -3'
miRNA:   3'- gcCGUCugGCCGGUCG--UCUGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 17635 0.71 0.137148
Target:  5'- aGGCccuGGAcgagauccuuaCCGGCCuGCAGGCCgauGGCCAu -3'
miRNA:   3'- gCCG---UCU-----------GGCCGGuCGUCUGG---CCGGU- -5'
1355 3' -63.6 NC_001335.1 + 14618 0.71 0.14083
Target:  5'- uCGGUgugaAGACCGGCCAGaccaacgagaAGGCCGuGCUg -3'
miRNA:   3'- -GCCG----UCUGGCCGGUCg---------UCUGGC-CGGu -5'
1355 3' -63.6 NC_001335.1 + 46496 0.7 0.144602
Target:  5'- cCGGCGGuagcucuugaGCUGGCCAGCGGugcucuUCGGCUu -3'
miRNA:   3'- -GCCGUC----------UGGCCGGUCGUCu-----GGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 2574 0.7 0.148465
Target:  5'- uGGCAGGCU-GCCuGCAGAUUGGaCCGg -3'
miRNA:   3'- gCCGUCUGGcCGGuCGUCUGGCC-GGU- -5'
1355 3' -63.6 NC_001335.1 + 47446 0.7 0.152423
Target:  5'- --uCAGGuuGGCCAGCAGugCauuGGCCAc -3'
miRNA:   3'- gccGUCUggCCGGUCGUCugG---CCGGU- -5'
1355 3' -63.6 NC_001335.1 + 32145 0.69 0.173678
Target:  5'- cCGGUAGcaguuCCGGCCcGCGaACuCGGCCAg -3'
miRNA:   3'- -GCCGUCu----GGCCGGuCGUcUG-GCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 13196 0.69 0.173678
Target:  5'- -aGCGGACCaGGCCgucgaauaccGGCAucCCGGCCAu -3'
miRNA:   3'- gcCGUCUGG-CCGG----------UCGUcuGGCCGGU- -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.