miRNA display CGI


Results 1 - 20 of 36 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
22240 5' -56.7 NC_005045.1 + 41563 0.74 0.17827
Target:  5'- gGGCagugGCUGCUGCGAUcacaGCGGUGGCcuuGGCc -3'
miRNA:   3'- -CCG----CGGUGACGCUA----CGUCAUCGu--CCG- -5'
22240 5' -56.7 NC_005045.1 + 41490 0.69 0.360064
Target:  5'- aGGCcaCCGCUGUGAUcGCAGcAGCcacugcccuGGGCg -3'
miRNA:   3'- -CCGc-GGUGACGCUA-CGUCaUCG---------UCCG- -5'
22240 5' -56.7 NC_005045.1 + 41286 0.7 0.302863
Target:  5'- gGGCGCCGggGCGGuUGCAcaggcuGUcaacgacagcAGCAGGCa -3'
miRNA:   3'- -CCGCGGUgaCGCU-ACGU------CA----------UCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 40533 0.66 0.523782
Target:  5'- cGGCGaaGCUcGCGAUGCuaucgagcaucuuuGGgAGCAGGg -3'
miRNA:   3'- -CCGCggUGA-CGCUACG--------------UCaUCGUCCg -5'
22240 5' -56.7 NC_005045.1 + 38387 0.68 0.395978
Target:  5'- -cCGCCuCcGCGAggagaugcgGCAGgcGCAGGCg -3'
miRNA:   3'- ccGCGGuGaCGCUa--------CGUCauCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 38309 0.68 0.40531
Target:  5'- -aCGCuCGaugGCGGUGCAgaccagcucauGUAGCAGGCc -3'
miRNA:   3'- ccGCG-GUga-CGCUACGU-----------CAUCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 35515 0.79 0.085181
Target:  5'- cGGCGCCGCUGaCGAUaucGcCGGUGGC-GGCu -3'
miRNA:   3'- -CCGCGGUGAC-GCUA---C-GUCAUCGuCCG- -5'
22240 5' -56.7 NC_005045.1 + 31262 0.71 0.295287
Target:  5'- cGGCGaaCCACUGCGcgGCuugcuCAGGCg -3'
miRNA:   3'- -CCGC--GGUGACGCuaCGucaucGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 30897 0.66 0.548709
Target:  5'- aGGCuGCCGCUG--GUGCGGUcGUacucgaAGGCg -3'
miRNA:   3'- -CCG-CGGUGACgcUACGUCAuCG------UCCG- -5'
22240 5' -56.7 NC_005045.1 + 28562 0.66 0.547617
Target:  5'- cGGCGUCAagggUGCauccgucGAUGCGGUGGCccuGGa -3'
miRNA:   3'- -CCGCGGUg---ACG-------CUACGUCAUCGu--CCg -5'
22240 5' -56.7 NC_005045.1 + 28550 0.71 0.26439
Target:  5'- uGGCuCCAcCUGCGAggccacggcuugcuUGCGGUAGCuagcGGCc -3'
miRNA:   3'- -CCGcGGU-GACGCU--------------ACGUCAUCGu---CCG- -5'
22240 5' -56.7 NC_005045.1 + 26807 0.68 0.40531
Target:  5'- -cCGCCGCUGg---GCAG-AGCGGGCc -3'
miRNA:   3'- ccGCGGUGACgcuaCGUCaUCGUCCG- -5'
22240 5' -56.7 NC_005045.1 + 26417 0.66 0.537822
Target:  5'- cGGCGUCACguaaGUGGccgugugGCuGUAGguGGUg -3'
miRNA:   3'- -CCGCGGUGa---CGCUa------CGuCAUCguCCG- -5'
22240 5' -56.7 NC_005045.1 + 26027 0.71 0.273445
Target:  5'- cGGUgGCCGCagcauUGCGAUGCuGGUGGCGcagcaccguGGCg -3'
miRNA:   3'- -CCG-CGGUG-----ACGCUACG-UCAUCGU---------CCG- -5'
22240 5' -56.7 NC_005045.1 + 25060 0.68 0.443986
Target:  5'- cGGCGCCACUuggGCGGUGauCAGggucuuGCucgggaggaacaGGGCg -3'
miRNA:   3'- -CCGCGGUGA---CGCUAC--GUCau----CG------------UCCG- -5'
22240 5' -56.7 NC_005045.1 + 22663 0.66 0.553084
Target:  5'- cGCGUCACUGcCGAggaaguccgcaucacUGCGGaAG-AGGCa -3'
miRNA:   3'- cCGCGGUGAC-GCU---------------ACGUCaUCgUCCG- -5'
22240 5' -56.7 NC_005045.1 + 22069 0.73 0.209949
Target:  5'- cGGCGUCGCUGUc--GCGGUacAGCAGaGCa -3'
miRNA:   3'- -CCGCGGUGACGcuaCGUCA--UCGUC-CG- -5'
22240 5' -56.7 NC_005045.1 + 21582 0.74 0.164077
Target:  5'- cGGCGUCGuCgagUGcCGGUGCAGUGGCAucGGCc -3'
miRNA:   3'- -CCGCGGU-G---AC-GCUACGUCAUCGU--CCG- -5'
22240 5' -56.7 NC_005045.1 + 18717 0.68 0.418606
Target:  5'- uGGCGCCGCcGCGAcccuggaacgacuggUGCGaUGGCGGa- -3'
miRNA:   3'- -CCGCGGUGaCGCU---------------ACGUcAUCGUCcg -5'
22240 5' -56.7 NC_005045.1 + 15442 0.66 0.51628
Target:  5'- cGGCccGCCGCaGCGGUuccaGCAG-GGgAGGCu -3'
miRNA:   3'- -CCG--CGGUGaCGCUA----CGUCaUCgUCCG- -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.