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
18262 3' -53.5 NC_004681.1 + 67034 0.66 0.869333
Target:  5'- gCGCGCGGcaccagGGCC--GCCAcagagUCAACGAc -3'
miRNA:   3'- -GCGUGCCa-----CUGGaaCGGU-----AGUUGCUu -5'
18262 3' -53.5 NC_004681.1 + 41003 0.66 0.869333
Target:  5'- aCGUccucaAUGGUGGgCUUGCCAUCcaucGCGGc -3'
miRNA:   3'- -GCG-----UGCCACUgGAACGGUAGu---UGCUu -5'
18262 3' -53.5 NC_004681.1 + 3380 0.66 0.85209
Target:  5'- gGCGCGGgacuccuugagggUGGCCUU-CCAUCcgAGCGAGc -3'
miRNA:   3'- gCGUGCC-------------ACUGGAAcGGUAG--UUGCUU- -5'
18262 3' -53.5 NC_004681.1 + 14495 0.66 0.844384
Target:  5'- gCGCGCuGGUGGCCggUGCUggC-GCGAGc -3'
miRNA:   3'- -GCGUG-CCACUGGa-ACGGuaGuUGCUU- -5'
18262 3' -53.5 NC_004681.1 + 29143 0.66 0.835611
Target:  5'- gGCGUGGcGACCUcaacgGCCAcgUCAACGAc -3'
miRNA:   3'- gCGUGCCaCUGGAa----CGGU--AGUUGCUu -5'
18262 3' -53.5 NC_004681.1 + 5767 0.67 0.826623
Target:  5'- aGCGgauCGGcacGACCUcGUCGUCGGCGAAg -3'
miRNA:   3'- gCGU---GCCa--CUGGAaCGGUAGUUGCUU- -5'
18262 3' -53.5 NC_004681.1 + 32507 0.67 0.817431
Target:  5'- uGCGCGGUggugccuucguaGugCUUGCCGUUGugGu- -3'
miRNA:   3'- gCGUGCCA------------CugGAACGGUAGUugCuu -5'
18262 3' -53.5 NC_004681.1 + 9183 0.67 0.798473
Target:  5'- gCGC-CGGUGACgacgcgGCCAuacuUCAGCGAc -3'
miRNA:   3'- -GCGuGCCACUGgaa---CGGU----AGUUGCUu -5'
18262 3' -53.5 NC_004681.1 + 17380 0.68 0.778819
Target:  5'- aGCGCGGUcgagGACCUcGUCAacaUCAugGAc -3'
miRNA:   3'- gCGUGCCA----CUGGAaCGGU---AGUugCUu -5'
18262 3' -53.5 NC_004681.1 + 32214 0.68 0.748227
Target:  5'- cCGcCGCGGUGACCgcuuccuggaUGCCggUGACGAc -3'
miRNA:   3'- -GC-GUGCCACUGGa---------ACGGuaGUUGCUu -5'
18262 3' -53.5 NC_004681.1 + 38985 0.68 0.727223
Target:  5'- gCGCugGGUGGCCgacgaggaaGgCGUCAACGu- -3'
miRNA:   3'- -GCGugCCACUGGaa-------CgGUAGUUGCuu -5'
18262 3' -53.5 NC_004681.1 + 12092 0.68 0.727223
Target:  5'- gGCuuGGUGGCCUUGUagcCAGCGGu -3'
miRNA:   3'- gCGugCCACUGGAACGguaGUUGCUu -5'
18262 3' -53.5 NC_004681.1 + 41207 0.68 0.727223
Target:  5'- aGCACGGUGACCguccgagUGUgAcCAACGc- -3'
miRNA:   3'- gCGUGCCACUGGa------ACGgUaGUUGCuu -5'
18262 3' -53.5 NC_004681.1 + 9092 0.69 0.716573
Target:  5'- uGCugACGGUGGCCgagguggcGCCGaCAGCGAGg -3'
miRNA:   3'- gCG--UGCCACUGGaa------CGGUaGUUGCUU- -5'
18262 3' -53.5 NC_004681.1 + 48802 0.69 0.70584
Target:  5'- gGCGCgGGUGACaucugauggUUGCCGUCGACa-- -3'
miRNA:   3'- gCGUG-CCACUGg--------AACGGUAGUUGcuu -5'
18262 3' -53.5 NC_004681.1 + 12188 0.69 0.70584
Target:  5'- aCGCGCGGgcgGACCUcgGCCAcguacUCGGCc-- -3'
miRNA:   3'- -GCGUGCCa--CUGGAa-CGGU-----AGUUGcuu -5'
18262 3' -53.5 NC_004681.1 + 5647 0.69 0.673252
Target:  5'- aCGCAgcUGGUGAgCUUcGCCGaCGACGAGg -3'
miRNA:   3'- -GCGU--GCCACUgGAA-CGGUaGUUGCUU- -5'
18262 3' -53.5 NC_004681.1 + 20011 0.7 0.651314
Target:  5'- gGCccGCGGUGGCCUucaUGCCGUgcccggugUAGCGAu -3'
miRNA:   3'- gCG--UGCCACUGGA---ACGGUA--------GUUGCUu -5'
18262 3' -53.5 NC_004681.1 + 62365 0.7 0.640314
Target:  5'- --gGCGGUGAUCUUGCCcccggcgcgGUgGACGAAg -3'
miRNA:   3'- gcgUGCCACUGGAACGG---------UAgUUGCUU- -5'
18262 3' -53.5 NC_004681.1 + 39029 0.7 0.6183
Target:  5'- uGCACGGUGGCCgguugcagGCUGcCAugGAGu -3'
miRNA:   3'- gCGUGCCACUGGaa------CGGUaGUugCUU- -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.