miRNA display CGI


Results 1 - 20 of 22 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
2381 5' -57.8 NC_001416.1 + 375 0.67 0.440426
Target:  5'- -uGCGCCGGGaGGUugaagaacuGCgGCAGGCCAGc -3'
miRNA:   3'- acUGCGGCCUgUCG---------UGgUGUCUGGUC- -5'
2381 5' -57.8 NC_001416.1 + 756 0.73 0.202634
Target:  5'- -cGCGCCGGGCuucgcucacuguucaGGCcggaGCCACAGACCGc -3'
miRNA:   3'- acUGCGGCCUG---------------UCG----UGGUGUCUGGUc -5'
2381 5' -57.8 NC_001416.1 + 2861 0.67 0.441394
Target:  5'- cUGGgGCCGGACGGCAUgACAucgcugcgcgaauauGCCGGu -3'
miRNA:   3'- -ACUgCGGCCUGUCGUGgUGUc--------------UGGUC- -5'
2381 5' -57.8 NC_001416.1 + 3384 0.66 0.553248
Target:  5'- cGACaGCCGGAacuGCcguGCCGguGugCAGa -3'
miRNA:   3'- aCUG-CGGCCUgu-CG---UGGUguCugGUC- -5'
2381 5' -57.8 NC_001416.1 + 4612 0.75 0.153042
Target:  5'- cUGuCGCCGGACAccGCAuCCGCAGGCUg- -3'
miRNA:   3'- -ACuGCGGCCUGU--CGU-GGUGUCUGGuc -5'
2381 5' -57.8 NC_001416.1 + 4690 0.66 0.510917
Target:  5'- ---aGCCGGACgcgGGCGCUGCAG-CCGu -3'
miRNA:   3'- acugCGGCCUG---UCGUGGUGUCuGGUc -5'
2381 5' -57.8 NC_001416.1 + 4996 0.7 0.310184
Target:  5'- aGACGCCGGgagGCGGCACUggcaagcaACuGACCu- -3'
miRNA:   3'- aCUGCGGCC---UGUCGUGG--------UGuCUGGuc -5'
2381 5' -57.8 NC_001416.1 + 5098 0.66 0.553248
Target:  5'- aUGACGuCCGGG-AGaCACUGCAGucCCGGa -3'
miRNA:   3'- -ACUGC-GGCCUgUC-GUGGUGUCu-GGUC- -5'
2381 5' -57.8 NC_001416.1 + 5885 0.66 0.500539
Target:  5'- -uGCGUgGGAUGGCACCACcGACg-- -3'
miRNA:   3'- acUGCGgCCUGUCGUGGUGuCUGguc -5'
2381 5' -57.8 NC_001416.1 + 8924 0.66 0.531931
Target:  5'- -cGCGCCGGuaguCAuaGCCGCuGGCCAc -3'
miRNA:   3'- acUGCGGCCu---GUcgUGGUGuCUGGUc -5'
2381 5' -57.8 NC_001416.1 + 9441 0.66 0.497444
Target:  5'- gUGACGCCuGcCAGCACCucgguggugaaaggGCAGAgCAc -3'
miRNA:   3'- -ACUGCGGcCuGUCGUGG--------------UGUCUgGUc -5'
2381 5' -57.8 NC_001416.1 + 10069 0.66 0.553248
Target:  5'- gGACGCCGGGC----CCGCAGAgCCu- -3'
miRNA:   3'- aCUGCGGCCUGucguGGUGUCU-GGuc -5'
2381 5' -57.8 NC_001416.1 + 11044 0.66 0.504679
Target:  5'- aGA-GCCGGGCAgGCGgCAgggcugacguuuaacCAGACCAGc -3'
miRNA:   3'- aCUgCGGCCUGU-CGUgGU---------------GUCUGGUC- -5'
2381 5' -57.8 NC_001416.1 + 12869 0.7 0.293008
Target:  5'- cGGCGguuaugucgguacaCCGGGCAGCAUgGCAGacaGCCGGu -3'
miRNA:   3'- aCUGC--------------GGCCUGUCGUGgUGUC---UGGUC- -5'
2381 5' -57.8 NC_001416.1 + 13781 0.7 0.333724
Target:  5'- -uACGCCGGACcaccGUuCCGCcGACCAGa -3'
miRNA:   3'- acUGCGGCCUGu---CGuGGUGuCUGGUC- -5'
2381 5' -57.8 NC_001416.1 + 14416 0.67 0.460023
Target:  5'- aGcCGCCGGuCGGCcucacucaGCCaggGCAGACCAc -3'
miRNA:   3'- aCuGCGGCCuGUCG--------UGG---UGUCUGGUc -5'
2381 5' -57.8 NC_001416.1 + 16038 1.08 0.000561
Target:  5'- aUGACGCCGGACAGCACCACAGACCAGc -3'
miRNA:   3'- -ACUGCGGCCUGUCGUGGUGUCUGGUC- -5'
2381 5' -57.8 NC_001416.1 + 16063 0.69 0.384633
Target:  5'- gGGCGCgGcGGCAGguuacccauCACCACcgAGGCCAGa -3'
miRNA:   3'- aCUGCGgC-CUGUC---------GUGGUG--UCUGGUC- -5'
2381 5' -57.8 NC_001416.1 + 16939 0.7 0.295205
Target:  5'- aUGACuauGCCGGuauCAGCACCGguGGCguGu -3'
miRNA:   3'- -ACUG---CGGCCu--GUCGUGGUguCUGguC- -5'
2381 5' -57.8 NC_001416.1 + 17995 0.66 0.510917
Target:  5'- cUGACGgaGGAUAaCGCCAgCAGACUGGa -3'
miRNA:   3'- -ACUGCggCCUGUcGUGGU-GUCUGGUC- -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.