miRNA display CGI


Results 1 - 20 of 83 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
24040 3' -58.8 NC_005262.1 + 10760 0.65 0.587088
Target:  5'- aACGGUUGuggugauCCGCCC-GCGC---CGGGCg -3'
miRNA:   3'- -UGCCAGC-------GGCGGGaCGUGauaGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 45174 0.66 0.581793
Target:  5'- uGCGGaCGCgaucaacauggguaaCGgCCUGCcCUcgCAGGCg -3'
miRNA:   3'- -UGCCaGCG---------------GCgGGACGuGAuaGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 25337 0.66 0.577565
Target:  5'- gGCGG-CGCaggaGCCggcgUUGCGCgcgguUCGGGCg -3'
miRNA:   3'- -UGCCaGCGg---CGG----GACGUGau---AGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 45290 0.66 0.577565
Target:  5'- gGCGGacaUGCCG-CCUGCGagggCAGGCc -3'
miRNA:   3'- -UGCCa--GCGGCgGGACGUgauaGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 49935 0.66 0.577565
Target:  5'- cCGGUacCGCCGCCg-GCAC---CGGGCc -3'
miRNA:   3'- uGCCA--GCGGCGGgaCGUGauaGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 40760 0.66 0.577565
Target:  5'- -gGGUCGUagaCGCUaUGCGCguggGUCGGGUc -3'
miRNA:   3'- ugCCAGCG---GCGGgACGUGa---UAGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 53663 0.66 0.577565
Target:  5'- gGCGaUCGCCaaccuGCCCgaggGCAuCUAUCagccGGGCg -3'
miRNA:   3'- -UGCcAGCGG-----CGGGa---CGU-GAUAG----UCCG- -5'
24040 3' -58.8 NC_005262.1 + 50497 0.66 0.576509
Target:  5'- -aGGagGCCGCCaaUGCuggaaccGCUGUCAGuGCa -3'
miRNA:   3'- ugCCagCGGCGGg-ACG-------UGAUAGUC-CG- -5'
24040 3' -58.8 NC_005262.1 + 9040 0.66 0.575453
Target:  5'- gAUGGguggagugCGUCGCCC-GCGCgagggucaaauaAUCGGGCg -3'
miRNA:   3'- -UGCCa-------GCGGCGGGaCGUGa-----------UAGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 33289 0.66 0.567024
Target:  5'- gGCGcUCGUCGUCCUGC---GUCGGcGCa -3'
miRNA:   3'- -UGCcAGCGGCGGGACGugaUAGUC-CG- -5'
24040 3' -58.8 NC_005262.1 + 47359 0.66 0.567024
Target:  5'- cGCGGcguccguuuUCGCCuuGUCCUGCGCcugCuGGCg -3'
miRNA:   3'- -UGCC---------AGCGG--CGGGACGUGauaGuCCG- -5'
24040 3' -58.8 NC_005262.1 + 61190 0.66 0.567024
Target:  5'- ---uUCGUCGCCCgGUACaucuucagguUAUCGGGCu -3'
miRNA:   3'- ugccAGCGGCGGGaCGUG----------AUAGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 88 0.66 0.567024
Target:  5'- uCGGccgCGCCGCacgcuUCUGCGCaUGUCAccGGCc -3'
miRNA:   3'- uGCCa--GCGGCG-----GGACGUG-AUAGU--CCG- -5'
24040 3' -58.8 NC_005262.1 + 57605 0.66 0.564921
Target:  5'- cGCGGUCGauGCCCgGCGCgacgcugaacuUCGGcGCc -3'
miRNA:   3'- -UGCCAGCggCGGGaCGUGau---------AGUC-CG- -5'
24040 3' -58.8 NC_005262.1 + 42162 0.66 0.556533
Target:  5'- cCGGUCGCgGCCgaucguCUGUACgugauGGGCg -3'
miRNA:   3'- uGCCAGCGgCGG------GACGUGauag-UCCG- -5'
24040 3' -58.8 NC_005262.1 + 58114 0.66 0.556533
Target:  5'- gACGGUC-CUGCCCuugcUGCGCUGUacucgcccugCuGGCc -3'
miRNA:   3'- -UGCCAGcGGCGGG----ACGUGAUA----------GuCCG- -5'
24040 3' -58.8 NC_005262.1 + 38825 0.66 0.556533
Target:  5'- aGCGGgaaccaGUCGCCa-GCGCUgagcGUCGGGUa -3'
miRNA:   3'- -UGCCag----CGGCGGgaCGUGA----UAGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 5029 0.66 0.555486
Target:  5'- aGCGGcaguugcUCGCCGgCCgGCGCcugaucggCGGGCa -3'
miRNA:   3'- -UGCC-------AGCGGCgGGaCGUGaua-----GUCCG- -5'
24040 3' -58.8 NC_005262.1 + 4561 0.66 0.546098
Target:  5'- cGCGG-CGCaucucgCGCCagcggcgGCGCUGcUCGGGCg -3'
miRNA:   3'- -UGCCaGCG------GCGGga-----CGUGAU-AGUCCG- -5'
24040 3' -58.8 NC_005262.1 + 2774 0.66 0.546098
Target:  5'- gGCGGgUGCCGCauCCUugucgucgaucaGCAUguccGUCAGGCg -3'
miRNA:   3'- -UGCCaGCGGCG--GGA------------CGUGa---UAGUCCG- -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.