miRNA display CGI


Results 1 - 20 of 52 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
24843 3' -57 NC_005284.1 + 15813 0.66 0.624324
Target:  5'- aGCGcGCaGCcCGCGGAUCAGCaucGCgCAc -3'
miRNA:   3'- aCGC-CG-CGuGCGCCUAGUUGgu-UG-GU- -5'
24843 3' -57 NC_005284.1 + 33178 0.7 0.372125
Target:  5'- cGCGGCGCGCGa-GAUCuugcCCAACg- -3'
miRNA:   3'- aCGCCGCGUGCgcCUAGuu--GGUUGgu -5'
24843 3' -57 NC_005284.1 + 6364 0.68 0.455714
Target:  5'- cGCGGCGaUugGCGcGUCuuCgCAGCCAa -3'
miRNA:   3'- aCGCCGC-GugCGCcUAGuuG-GUUGGU- -5'
24843 3' -57 NC_005284.1 + 53403 0.68 0.455714
Target:  5'- cGCcaGCaCGCGCGGAUCGGuCCAAUCGu -3'
miRNA:   3'- aCGc-CGcGUGCGCCUAGUU-GGUUGGU- -5'
24843 3' -57 NC_005284.1 + 23121 0.67 0.548419
Target:  5'- cGCuGGCGCA-GCGGcaAUgAGCCGcuGCCAg -3'
miRNA:   3'- aCG-CCGCGUgCGCC--UAgUUGGU--UGGU- -5'
24843 3' -57 NC_005284.1 + 6037 0.67 0.559129
Target:  5'- cGCGGCGCacgccGCGCGGGUUGAUgGuUCu -3'
miRNA:   3'- aCGCCGCG-----UGCGCCUAGUUGgUuGGu -5'
24843 3' -57 NC_005284.1 + 37826 1.08 0.00069
Target:  5'- aUGCGGCGCACGCGGAUCAACCAACCAu -3'
miRNA:   3'- -ACGCCGCGUGCGCCUAGUUGGUUGGU- -5'
24843 3' -57 NC_005284.1 + 24378 0.78 0.114892
Target:  5'- cGUcGCGCACGCGGAcgaUCGacauGCCGACCAg -3'
miRNA:   3'- aCGcCGCGUGCGCCU---AGU----UGGUUGGU- -5'
24843 3' -57 NC_005284.1 + 21328 0.72 0.2996
Target:  5'- cGaCGGCGCGuguaagcacUGCGGAUCGACUA-CCGc -3'
miRNA:   3'- aC-GCCGCGU---------GCGCCUAGUUGGUuGGU- -5'
24843 3' -57 NC_005284.1 + 48206 0.69 0.40706
Target:  5'- gGCGcGCGCuuACGCgccucgucacGGAUCAccuucgcACCAGCCAc -3'
miRNA:   3'- aCGC-CGCG--UGCG----------CCUAGU-------UGGUUGGU- -5'
24843 3' -57 NC_005284.1 + 43623 0.67 0.537774
Target:  5'- cGCGGCgGC-CGCGGcgcgagcugcGUCAGCauugaAGCCGa -3'
miRNA:   3'- aCGCCG-CGuGCGCC----------UAGUUGg----UUGGU- -5'
24843 3' -57 NC_005284.1 + 36537 0.66 0.591576
Target:  5'- gGCGGCuGCACcgaugGCGGAacgaUCGugAUCGGCCGu -3'
miRNA:   3'- aCGCCG-CGUG-----CGCCU----AGU--UGGUUGGU- -5'
24843 3' -57 NC_005284.1 + 38755 0.72 0.277981
Target:  5'- -cCGGCGCaAUGCGGAUCucgucgcgcCCGACCGg -3'
miRNA:   3'- acGCCGCG-UGCGCCUAGuu-------GGUUGGU- -5'
24843 3' -57 NC_005284.1 + 32962 0.66 0.580715
Target:  5'- gGCGGCGCuggaaGCGcCGGG-CAcGCCGucGCCAc -3'
miRNA:   3'- aCGCCGCG-----UGC-GCCUaGU-UGGU--UGGU- -5'
24843 3' -57 NC_005284.1 + 5458 0.68 0.455714
Target:  5'- cGUcGCGCACGCGuGccguGCCAACCAu -3'
miRNA:   3'- aCGcCGCGUGCGC-CuaguUGGUUGGU- -5'
24843 3' -57 NC_005284.1 + 23584 0.73 0.238501
Target:  5'- cGCGGCGaugcUACGCGaGAUCGgaAUCGACCGa -3'
miRNA:   3'- aCGCCGC----GUGCGC-CUAGU--UGGUUGGU- -5'
24843 3' -57 NC_005284.1 + 3135 0.67 0.568818
Target:  5'- cGUcGCGCGCGCGuGAUucacauaCAGCCGAgCAa -3'
miRNA:   3'- aCGcCGCGUGCGC-CUA-------GUUGGUUgGU- -5'
24843 3' -57 NC_005284.1 + 27239 0.71 0.338475
Target:  5'- cUGCaGCGCACGCGGccaaUAGCCgAACCc -3'
miRNA:   3'- -ACGcCGCGUGCGCCua--GUUGG-UUGGu -5'
24843 3' -57 NC_005284.1 + 34851 0.69 0.436253
Target:  5'- cGCacaGGCGCACGauugGGAUCGGCuCGACa- -3'
miRNA:   3'- aCG---CCGCGUGCg---CCUAGUUG-GUUGgu -5'
24843 3' -57 NC_005284.1 + 14273 0.69 0.417279
Target:  5'- aUGCGGCGUuacaggACGCGG-UCAAgCGgauuGCCGa -3'
miRNA:   3'- -ACGCCGCG------UGCGCCuAGUUgGU----UGGU- -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.