miRNA display CGI


Results 21 - 38 of 38 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
23807 3' -56.3 NC_005261.1 + 43786 0.68 0.790832
Target:  5'- cGCGcGGAGGGCgCCgcggGUGaggGGGCGCc -3'
miRNA:   3'- -UGCaCCUUCCG-GGa---CAUgcaCUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 61576 0.68 0.78163
Target:  5'- gGCGcUGGugauGGCCgUGUuCGUGGGCaGCc -3'
miRNA:   3'- -UGC-ACCuu--CCGGgACAuGCACUCG-CG- -5'
23807 3' -56.3 NC_005261.1 + 49361 0.68 0.772293
Target:  5'- cGCGUGGAggauguugAGGCUgucgcucgcgCUGgccaGCGUGcAGCGCu -3'
miRNA:   3'- -UGCACCU--------UCCGG----------GACa---UGCAC-UCGCG- -5'
23807 3' -56.3 NC_005261.1 + 17178 0.68 0.772293
Target:  5'- gGCGUGGGcaGCCCUGccgcgGCGgcgaGcAGCGCg -3'
miRNA:   3'- -UGCACCUucCGGGACa----UGCa---C-UCGCG- -5'
23807 3' -56.3 NC_005261.1 + 43609 0.68 0.76283
Target:  5'- gGCGaGGAGGGCgagugCUUcGUGCuGUGGGCGCc -3'
miRNA:   3'- -UGCaCCUUCCG-----GGA-CAUG-CACUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 58680 0.69 0.743564
Target:  5'- uACGgcaGGAGGCCCgGgcCGUcaGGGCGCg -3'
miRNA:   3'- -UGCac-CUUCCGGGaCauGCA--CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 89771 0.69 0.723906
Target:  5'- cCGUGGccgagGAGGCCCU--GCGgGAGCGg -3'
miRNA:   3'- uGCACC-----UUCCGGGAcaUGCaCUCGCg -5'
23807 3' -56.3 NC_005261.1 + 97359 0.69 0.723906
Target:  5'- cCGUGGGGucuacGGCCCgg-GCGUGucgccGCGCg -3'
miRNA:   3'- uGCACCUU-----CCGGGacaUGCACu----CGCG- -5'
23807 3' -56.3 NC_005261.1 + 118961 0.69 0.713953
Target:  5'- cACGUGGccAAGGUCCUGcACGcc-GCGCu -3'
miRNA:   3'- -UGCACC--UUCCGGGACaUGCacuCGCG- -5'
23807 3' -56.3 NC_005261.1 + 98364 0.7 0.674551
Target:  5'- -gGUGGGcgcGGGCUCUGgcgggcgcaauaccgGCGUGGGgGCg -3'
miRNA:   3'- ugCACCU---UCCGGGACa--------------UGCACUCgCG- -5'
23807 3' -56.3 NC_005261.1 + 58014 0.7 0.673532
Target:  5'- gACGUGGAAGuGCCgCg--GCGgcagcuccaggGAGCGCg -3'
miRNA:   3'- -UGCACCUUC-CGG-GacaUGCa----------CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 88469 0.7 0.663319
Target:  5'- gUGUGGGcGGGCCgUGccGCGccgGAGCGCg -3'
miRNA:   3'- uGCACCU-UCCGGgACa-UGCa--CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 105578 0.7 0.653081
Target:  5'- cGCGUaGAGGGCCUcgGggcGCGUGcGCGCg -3'
miRNA:   3'- -UGCAcCUUCCGGGa-Ca--UGCACuCGCG- -5'
23807 3' -56.3 NC_005261.1 + 130482 0.71 0.6223
Target:  5'- gGCGUGccucggcggcGAGGGCCCcGacgACGUG-GCGCa -3'
miRNA:   3'- -UGCAC----------CUUCCGGGaCa--UGCACuCGCG- -5'
23807 3' -56.3 NC_005261.1 + 22102 0.72 0.551077
Target:  5'- gGCG-GGAGGGCggUGUGCGgaGAGUGCg -3'
miRNA:   3'- -UGCaCCUUCCGggACAUGCa-CUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 120619 0.75 0.39844
Target:  5'- cCGUGGGGcuccugcugguggcGGCCCUGUGCcUGcGGCGCa -3'
miRNA:   3'- uGCACCUU--------------CCGGGACAUGcAC-UCGCG- -5'
23807 3' -56.3 NC_005261.1 + 122638 0.76 0.375839
Target:  5'- aGCGc--GAGGCCCggcgcgcGUACGUGGGCGCg -3'
miRNA:   3'- -UGCaccUUCCGGGa------CAUGCACUCGCG- -5'
23807 3' -56.3 NC_005261.1 + 31556 0.76 0.362861
Target:  5'- cACGccUGGGccGGGUCCUGgacgggcgcgccggACGUGAGCGCg -3'
miRNA:   3'- -UGC--ACCU--UCCGGGACa-------------UGCACUCGCG- -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.