miRNA display CGI


Results 1 - 20 of 90 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
25595 3' -57.2 NC_005337.1 + 10295 0.66 0.843542
Target:  5'- gGAGggGCCUCGGaaCACc-AUGCCUg- -3'
miRNA:   3'- aCUCuuCGGGGCC--GUGcaUGCGGAag -5'
25595 3' -57.2 NC_005337.1 + 91456 0.66 0.843542
Target:  5'- cGGGcgguuGGCCguuauCCGGCucuCGUGCGCCg-- -3'
miRNA:   3'- aCUCu----UCGG-----GGCCGu--GCAUGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 42122 0.66 0.842729
Target:  5'- cGAGAcgaggacggcgcuGGCCCgCGGCGCGUccgGgGUCUg- -3'
miRNA:   3'- aCUCU-------------UCGGG-GCCGUGCA---UgCGGAag -5'
25595 3' -57.2 NC_005337.1 + 67984 0.66 0.835327
Target:  5'- --cGcGGUCCaggguCGGCGCGUGCGCCa-- -3'
miRNA:   3'- acuCuUCGGG-----GCCGUGCAUGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 84451 0.66 0.835327
Target:  5'- cGAGGAGCCCgcggagGGCGCGgccgGCaCCUccgUCa -3'
miRNA:   3'- aCUCUUCGGGg-----CCGUGCa---UGcGGA---AG- -5'
25595 3' -57.2 NC_005337.1 + 71851 0.66 0.835327
Target:  5'- aUGAGAGGUgCCCGGCAUcc-UGCCg-- -3'
miRNA:   3'- -ACUCUUCG-GGGCCGUGcauGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 68180 0.66 0.835327
Target:  5'- cGAGuacGCCCUGaGCGCGgccccggggGCGCCg-- -3'
miRNA:   3'- aCUCuu-CGGGGC-CGUGCa--------UGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 114818 0.66 0.835327
Target:  5'- gGGGAGGUgcaggcguaCCGGCAC-UACGCCg-- -3'
miRNA:   3'- aCUCUUCGg--------GGCCGUGcAUGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 114125 0.66 0.835327
Target:  5'- --cGcGGCCUgCGGCAgCGUggagcGCGCCUUCg -3'
miRNA:   3'- acuCuUCGGG-GCCGU-GCA-----UGCGGAAG- -5'
25595 3' -57.2 NC_005337.1 + 65445 0.66 0.835327
Target:  5'- gGAGGAGCCagGGCGCGacgGCGUUguacUCg -3'
miRNA:   3'- aCUCUUCGGggCCGUGCa--UGCGGa---AG- -5'
25595 3' -57.2 NC_005337.1 + 41621 0.66 0.826924
Target:  5'- -aGGAGGCCgUGGUGCG-ACGCCc-- -3'
miRNA:   3'- acUCUUCGGgGCCGUGCaUGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 35789 0.66 0.826924
Target:  5'- aUGAcGGAcGCCgCCGGCGCGccccUGCCUUg -3'
miRNA:   3'- -ACU-CUU-CGG-GGCCGUGCau--GCGGAAg -5'
25595 3' -57.2 NC_005337.1 + 40232 0.66 0.826924
Target:  5'- gGAGAAGUCgUCGGcCGCGccGCGCCg-- -3'
miRNA:   3'- aCUCUUCGG-GGCC-GUGCa-UGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 52365 0.66 0.818344
Target:  5'- gGAcGggGCCgcugaCGGCuGCGgggccguggACGCCUUCg -3'
miRNA:   3'- aCU-CuuCGGg----GCCG-UGCa--------UGCGGAAG- -5'
25595 3' -57.2 NC_005337.1 + 131813 0.66 0.818344
Target:  5'- cGGGggGCUUCGGCAacacgGCGCUg-- -3'
miRNA:   3'- aCUCuuCGGGGCCGUgca--UGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 131655 0.66 0.818344
Target:  5'- cGAGGAG-CCCGuGCGCGccGCGCUg-- -3'
miRNA:   3'- aCUCUUCgGGGC-CGUGCa-UGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 41862 0.66 0.818344
Target:  5'- cGAGcaggugcgcGAGCCCCaGCACGUccccgACGUCgcgUCc -3'
miRNA:   3'- aCUC---------UUCGGGGcCGUGCA-----UGCGGa--AG- -5'
25595 3' -57.2 NC_005337.1 + 35086 0.66 0.818344
Target:  5'- --cGggGCCCUGGCGC-UGCaugucgGUCUUCu -3'
miRNA:   3'- acuCuuCGGGGCCGUGcAUG------CGGAAG- -5'
25595 3' -57.2 NC_005337.1 + 46361 0.66 0.809591
Target:  5'- --cGAAGCgCCGGCGCaggcGCGCCa-- -3'
miRNA:   3'- acuCUUCGgGGCCGUGca--UGCGGaag -5'
25595 3' -57.2 NC_005337.1 + 98453 0.66 0.809591
Target:  5'- cGGGAucGGCCUgCGGCauGCGUGCGCa--- -3'
miRNA:   3'- aCUCU--UCGGG-GCCG--UGCAUGCGgaag -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.