miRNA display CGI


Results 1 - 20 of 23 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
12113 3' -55.5 NC_003309.1 + 11969 0.66 0.72663
Target:  5'- -gCGCGCGC-CGCgucgGCGUUgaaGCCGAa -3'
miRNA:   3'- gaGUGUGCGuGCGaca-UGCAG---CGGCU- -5'
12113 3' -55.5 NC_003309.1 + 7762 0.66 0.72663
Target:  5'- -gCGCcgGCGCcuuCGCcgGUGCGaCGCCGAg -3'
miRNA:   3'- gaGUG--UGCGu--GCGa-CAUGCaGCGGCU- -5'
12113 3' -55.5 NC_003309.1 + 10599 0.66 0.725573
Target:  5'- uUCGCGCGUgccgucgcgacauGCGCU-UGCGcCGCCGc -3'
miRNA:   3'- gAGUGUGCG-------------UGCGAcAUGCaGCGGCu -5'
12113 3' -55.5 NC_003309.1 + 11471 0.66 0.70534
Target:  5'- gCUCGaacaaguuCGCACGUaGUuCGUCGCCGc -3'
miRNA:   3'- -GAGUgu------GCGUGCGaCAuGCAGCGGCu -5'
12113 3' -55.5 NC_003309.1 + 13454 0.66 0.694583
Target:  5'- -cCACACGCAgCGUcGUAuCGcCGCCGu -3'
miRNA:   3'- gaGUGUGCGU-GCGaCAU-GCaGCGGCu -5'
12113 3' -55.5 NC_003309.1 + 47921 0.66 0.683767
Target:  5'- gUCGuCGCGCACGCgugccGUGCcaaccaUCGCCGu -3'
miRNA:   3'- gAGU-GUGCGUGCGa----CAUGc-----AGCGGCu -5'
12113 3' -55.5 NC_003309.1 + 12154 0.66 0.683767
Target:  5'- cCUCgACGCGCAguugcgcgaucCGCUGccggAUGUUGUCGAg -3'
miRNA:   3'- -GAG-UGUGCGU-----------GCGACa---UGCAGCGGCU- -5'
12113 3' -55.5 NC_003309.1 + 19282 0.66 0.683767
Target:  5'- -gCGCACGCGCGCgagGUAU-UUGCCc- -3'
miRNA:   3'- gaGUGUGCGUGCGa--CAUGcAGCGGcu -5'
12113 3' -55.5 NC_003309.1 + 22835 0.67 0.672901
Target:  5'- -cCGCACGCACGCcg---GUCGCCc- -3'
miRNA:   3'- gaGUGUGCGUGCGacaugCAGCGGcu -5'
12113 3' -55.5 NC_003309.1 + 23259 0.67 0.661998
Target:  5'- --uGC-CGCACGCUGgAUGUCGgUGAg -3'
miRNA:   3'- gagUGuGCGUGCGACaUGCAGCgGCU- -5'
12113 3' -55.5 NC_003309.1 + 43539 0.67 0.661998
Target:  5'- -gCACGCGCACGC----CGUCGgCGGc -3'
miRNA:   3'- gaGUGUGCGUGCGacauGCAGCgGCU- -5'
12113 3' -55.5 NC_003309.1 + 3929 0.67 0.651067
Target:  5'- aUCuGCGCGC-CGCUGU-CGaauUCGCCGu -3'
miRNA:   3'- gAG-UGUGCGuGCGACAuGC---AGCGGCu -5'
12113 3' -55.5 NC_003309.1 + 17927 0.67 0.640118
Target:  5'- -aCGCACcgGCACGCUcgagaacgaacGUGCGUCgaacgucauGCCGAc -3'
miRNA:   3'- gaGUGUG--CGUGCGA-----------CAUGCAG---------CGGCU- -5'
12113 3' -55.5 NC_003309.1 + 23413 0.67 0.614926
Target:  5'- gCUCG-AUGUACGCauucgcgagacgaaUGUGCGcCGCCGAu -3'
miRNA:   3'- -GAGUgUGCGUGCG--------------ACAUGCaGCGGCU- -5'
12113 3' -55.5 NC_003309.1 + 21949 0.68 0.611643
Target:  5'- aUCACGCGUgaaGCGCUGgcccGCGuacacgucuuucguaUCGCCGu -3'
miRNA:   3'- gAGUGUGCG---UGCGACa---UGC---------------AGCGGCu -5'
12113 3' -55.5 NC_003309.1 + 31429 0.69 0.521207
Target:  5'- gCUCGCuCGCugGCgaccaGUGCGcagcCGCCGGc -3'
miRNA:   3'- -GAGUGuGCGugCGa----CAUGCa---GCGGCU- -5'
12113 3' -55.5 NC_003309.1 + 39277 0.69 0.500377
Target:  5'- -aCuCGCGCAUGCguUGCGUCGCCa- -3'
miRNA:   3'- gaGuGUGCGUGCGacAUGCAGCGGcu -5'
12113 3' -55.5 NC_003309.1 + 13491 0.7 0.490099
Target:  5'- --gGCcCGCugGgUGUAgcCGUCGCCGAa -3'
miRNA:   3'- gagUGuGCGugCgACAU--GCAGCGGCU- -5'
12113 3' -55.5 NC_003309.1 + 35057 0.71 0.429731
Target:  5'- gUCGCACcgaucccgaccgaGCGC-CUGUGCGaCGCCGAc -3'
miRNA:   3'- gAGUGUG-------------CGUGcGACAUGCaGCGGCU- -5'
12113 3' -55.5 NC_003309.1 + 9471 0.71 0.393505
Target:  5'- -aCGC-CGCAuCGCUGUGCGccCGCCGu -3'
miRNA:   3'- gaGUGuGCGU-GCGACAUGCa-GCGGCu -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.