miRNA display CGI


Results 1 - 20 of 40 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
24832 3' -59.4 NC_005284.1 + 43619 0.66 0.517057
Target:  5'- cGCGcGCgGCGGccGCGGCGCGAGCu---- -3'
miRNA:   3'- cCGC-CG-UGCC--UGCUGCGCUCGccuuu -5'
24832 3' -59.4 NC_005284.1 + 26347 0.66 0.517057
Target:  5'- cGCGGCACGGucaacgcCGGCGCGc-CGGu-- -3'
miRNA:   3'- cCGCCGUGCCu------GCUGCGCucGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 11863 0.66 0.506881
Target:  5'- aGGCcgacuGGCGCGu-CGGCGUGAaGCGGGc- -3'
miRNA:   3'- -CCG-----CCGUGCcuGCUGCGCU-CGCCUuu -5'
24832 3' -59.4 NC_005284.1 + 17442 0.66 0.476891
Target:  5'- aGGUGGUACaGGAUcuCGCGAGCGu--- -3'
miRNA:   3'- -CCGCCGUG-CCUGcuGCGCUCGCcuuu -5'
24832 3' -59.4 NC_005284.1 + 45970 0.66 0.476891
Target:  5'- uGGCGcaGCGuGGCGugGaCGAGUGGAu- -3'
miRNA:   3'- -CCGCcgUGC-CUGCugC-GCUCGCCUuu -5'
24832 3' -59.4 NC_005284.1 + 23078 0.66 0.475906
Target:  5'- uGGUGGC---GGCGACGCugguagcauguggGGGCGGAAAc -3'
miRNA:   3'- -CCGCCGugcCUGCUGCG-------------CUCGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 23585 0.67 0.467089
Target:  5'- aGCGGgucgaGCGGuucauCGACGCG-GCGGGu- -3'
miRNA:   3'- cCGCCg----UGCCu----GCUGCGCuCGCCUuu -5'
24832 3' -59.4 NC_005284.1 + 9343 0.67 0.467089
Target:  5'- cGGCGaGU-CGGAUcaagcgacgGGCGCGAGCGcGAGg -3'
miRNA:   3'- -CCGC-CGuGCCUG---------CUGCGCUCGC-CUUu -5'
24832 3' -59.4 NC_005284.1 + 8342 0.67 0.467089
Target:  5'- cGGCGGCAuuCGG-CGACGgCGAuCGGu-- -3'
miRNA:   3'- -CCGCCGU--GCCuGCUGC-GCUcGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 46585 0.67 0.457393
Target:  5'- uGGCGGCGCaguGGGCaACGCcgaacgucccGAGCGGc-- -3'
miRNA:   3'- -CCGCCGUG---CCUGcUGCG----------CUCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 9256 0.67 0.428972
Target:  5'- gGGCGGCACGGAU-ACGCuGuuCGaGAAAa -3'
miRNA:   3'- -CCGCCGUGCCUGcUGCG-CucGC-CUUU- -5'
24832 3' -59.4 NC_005284.1 + 50894 0.67 0.428972
Target:  5'- gGGCGGCuCGG-CGcauucauCGaGAGCGGAGAu -3'
miRNA:   3'- -CCGCCGuGCCuGCu------GCgCUCGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 22864 0.67 0.419732
Target:  5'- aGGCGGCGggaaGGGCGucgagcgcCGCGAGCuGAu- -3'
miRNA:   3'- -CCGCCGUg---CCUGCu-------GCGCUCGcCUuu -5'
24832 3' -59.4 NC_005284.1 + 11172 0.67 0.419732
Target:  5'- cGCGcCGCGGcCGcCGCGcGCGGAAAg -3'
miRNA:   3'- cCGCcGUGCCuGCuGCGCuCGCCUUU- -5'
24832 3' -59.4 NC_005284.1 + 47580 0.67 0.419732
Target:  5'- uGGCGGUGCGuGACGcUGUugaGGCGGAAc -3'
miRNA:   3'- -CCGCCGUGC-CUGCuGCGc--UCGCCUUu -5'
24832 3' -59.4 NC_005284.1 + 13360 0.67 0.418814
Target:  5'- cGGCGGCaagcugACGGugGGCgGCGAucugucuGCGGc-- -3'
miRNA:   3'- -CCGCCG------UGCCugCUG-CGCU-------CGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 33117 0.68 0.410613
Target:  5'- cGGCGGcCACcGcCGACGCG-GCGGc-- -3'
miRNA:   3'- -CCGCC-GUGcCuGCUGCGCuCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 4635 0.68 0.401618
Target:  5'- cGGuCGGCA---GCGGCGUGAGCGGc-- -3'
miRNA:   3'- -CC-GCCGUgccUGCUGCGCUCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 8079 0.68 0.370297
Target:  5'- cGGCGGCuauucuCGGACGAcgaugcaaccgcgguCGCG-GCGGc-- -3'
miRNA:   3'- -CCGCCGu-----GCCUGCU---------------GCGCuCGCCuuu -5'
24832 3' -59.4 NC_005284.1 + 16174 0.68 0.366921
Target:  5'- gGGCucGGCGCGucGAUGGCGCuGGGCGGc-- -3'
miRNA:   3'- -CCG--CCGUGC--CUGCUGCG-CUCGCCuuu -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.