miRNA display CGI


Results 1 - 20 of 24 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
11523 5' -59.8 NC_003085.1 + 48945 0.66 0.48293
Target:  5'- aGGGCaGCGCG-Ca--UCCGGUccgGCCCGc -3'
miRNA:   3'- -CCCG-CGCGUaGaugAGGCCA---CGGGCu -5'
11523 5' -59.8 NC_003085.1 + 18969 0.66 0.438361
Target:  5'- uGGCGCGCuucCUGCgcagcaacgccuucgUCCGGUGCaUCGu -3'
miRNA:   3'- cCCGCGCGua-GAUG---------------AGGCCACG-GGCu -5'
11523 5' -59.8 NC_003085.1 + 43197 0.66 0.434597
Target:  5'- uGGGCGCGC-UCUACgCCaaGGcUGuuCCCGGc -3'
miRNA:   3'- -CCCGCGCGuAGAUGaGG--CC-AC--GGGCU- -5'
11523 5' -59.8 NC_003085.1 + 22826 0.66 0.434597
Target:  5'- cGGCGgGCGUCgucgGCgCgGGUGUCgGAg -3'
miRNA:   3'- cCCGCgCGUAGa---UGaGgCCACGGgCU- -5'
11523 5' -59.8 NC_003085.1 + 37120 0.67 0.425268
Target:  5'- cGGCgccaGCGCGg-UACaggCCGGUGUCCGGg -3'
miRNA:   3'- cCCG----CGCGUagAUGa--GGCCACGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 21959 0.67 0.425268
Target:  5'- aGGGgGUGgcucCGUUgGCUCagcaGGUGCCCGGc -3'
miRNA:   3'- -CCCgCGC----GUAGaUGAGg---CCACGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 37969 0.67 0.416061
Target:  5'- aGGGCaGCGcCGUCgGCg-UGGUGCCCa- -3'
miRNA:   3'- -CCCG-CGC-GUAGaUGagGCCACGGGcu -5'
11523 5' -59.8 NC_003085.1 + 10945 0.67 0.398017
Target:  5'- cGGuGCGCGUGUUggUGCUCgaugacuugggCGGaUGCCCGGc -3'
miRNA:   3'- -CC-CGCGCGUAG--AUGAG-----------GCC-ACGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 19159 0.67 0.389185
Target:  5'- cGGGUgcgGCGCA-CUcCgUCCGG-GCCCGGc -3'
miRNA:   3'- -CCCG---CGCGUaGAuG-AGGCCaCGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 785 0.67 0.380483
Target:  5'- aGGCGCGgGUggacCUGCUCaGGccgcGCCCGAg -3'
miRNA:   3'- cCCGCGCgUA----GAUGAGgCCa---CGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 20948 0.68 0.371911
Target:  5'- -cGCGCGCGUCUGCacgaggUgCGGUGgCUGGc -3'
miRNA:   3'- ccCGCGCGUAGAUG------AgGCCACgGGCU- -5'
11523 5' -59.8 NC_003085.1 + 11795 0.68 0.346997
Target:  5'- cGGGCGUGUcggCUGCcccaucgCCgGGUGcCCCGAc -3'
miRNA:   3'- -CCCGCGCGua-GAUGa------GG-CCAC-GGGCU- -5'
11523 5' -59.8 NC_003085.1 + 10254 0.68 0.338961
Target:  5'- aGGuCGCGCAUUgcagCCGGguccGCCCGGu -3'
miRNA:   3'- cCC-GCGCGUAGaugaGGCCa---CGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 5576 0.68 0.331062
Target:  5'- cGGUGCGCcacGUCUACgccCUGGUGCggaCGAu -3'
miRNA:   3'- cCCGCGCG---UAGAUGa--GGCCACGg--GCU- -5'
11523 5' -59.8 NC_003085.1 + 30354 0.69 0.314917
Target:  5'- gGGGCGCacugcgGCGUCUAgcaUCCcgcccgggccaucGGUGCCUGGg -3'
miRNA:   3'- -CCCGCG------CGUAGAUg--AGG-------------CCACGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 36686 0.69 0.308183
Target:  5'- cGGGCGC-CGg--AUUCCGG-GCCUGAc -3'
miRNA:   3'- -CCCGCGcGUagaUGAGGCCaCGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 9769 0.69 0.286531
Target:  5'- cGGCGCuccaGUCUGCagggacgccagCCGGUGCUCGAc -3'
miRNA:   3'- cCCGCGcg--UAGAUGa----------GGCCACGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 48039 0.7 0.259551
Target:  5'- aGGGCGCGCuug-GCUgUGGUGaCCgCGAu -3'
miRNA:   3'- -CCCGCGCGuagaUGAgGCCAC-GG-GCU- -5'
11523 5' -59.8 NC_003085.1 + 19061 0.71 0.228783
Target:  5'- cGGCGCGCggCggagcagGCgCCGG-GCCCGGa -3'
miRNA:   3'- cCCGCGCGuaGa------UGaGGCCaCGGGCU- -5'
11523 5' -59.8 NC_003085.1 + 42841 0.72 0.205372
Target:  5'- cGGCGCGCGUCUucguCUCCccaccucccgGCCCGGc -3'
miRNA:   3'- cCCGCGCGUAGAu---GAGGcca-------CGGGCU- -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.