miRNA display CGI


Results 1 - 14 of 14 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
18585 5' -58.3 NC_004682.1 + 28048 0.66 0.539842
Target:  5'- -uCGGCcacGUcCUCGAUGgGGagugugccucccucGGCGACGAa -3'
miRNA:   3'- uuGCCG---UA-GAGCUACgCC--------------CCGCUGCU- -5'
18585 5' -58.3 NC_004682.1 + 3209 0.66 0.530353
Target:  5'- cAACGGCAUCaccuacgUCGGcgGCGcggcacaGGGCGACa- -3'
miRNA:   3'- -UUGCCGUAG-------AGCUa-CGC-------CCCGCUGcu -5'
18585 5' -58.3 NC_004682.1 + 8832 0.66 0.511564
Target:  5'- --gGGCAUCuucaUCGGacugaucacUGCGGGGCGcUGAu -3'
miRNA:   3'- uugCCGUAG----AGCU---------ACGCCCCGCuGCU- -5'
18585 5' -58.3 NC_004682.1 + 47128 0.66 0.511564
Target:  5'- --aGGCGUCgagGAUGCGGaugauggcuucGGCGAUGGc -3'
miRNA:   3'- uugCCGUAGag-CUACGCC-----------CCGCUGCU- -5'
18585 5' -58.3 NC_004682.1 + 28687 0.66 0.50846
Target:  5'- -uCGGCGUgccgaugccgcccaCUCGcgGCGGcGGCGggACGAa -3'
miRNA:   3'- uuGCCGUA--------------GAGCuaCGCC-CCGC--UGCU- -5'
18585 5' -58.3 NC_004682.1 + 16666 0.66 0.501246
Target:  5'- cGCGGCAUgcgCUCGG-GCGGcagcGGUGAUGGg -3'
miRNA:   3'- uUGCCGUA---GAGCUaCGCC----CCGCUGCU- -5'
18585 5' -58.3 NC_004682.1 + 23665 0.67 0.480892
Target:  5'- uGCGGCc-CUCc-UGCGGGGCGAguuCGAu -3'
miRNA:   3'- uUGCCGuaGAGcuACGCCCCGCU---GCU- -5'
18585 5' -58.3 NC_004682.1 + 14278 0.67 0.460948
Target:  5'- cGACGGCggCaaGccGCaGGGCGGCGAg -3'
miRNA:   3'- -UUGCCGuaGagCuaCGcCCCGCUGCU- -5'
18585 5' -58.3 NC_004682.1 + 4610 0.69 0.350704
Target:  5'- --aGGCGaagaacuUCguggaGGUGUGGGGCGACGGc -3'
miRNA:   3'- uugCCGU-------AGag---CUACGCCCCGCUGCU- -5'
18585 5' -58.3 NC_004682.1 + 31982 0.71 0.275402
Target:  5'- cGACGGcCAUCUgGAccggcUGCucGGGCGGCGAg -3'
miRNA:   3'- -UUGCC-GUAGAgCU-----ACGc-CCCGCUGCU- -5'
18585 5' -58.3 NC_004682.1 + 45737 0.73 0.202125
Target:  5'- cGCGGCGUCgaccacgggggUCGGUGCGGGuGCGG-GAg -3'
miRNA:   3'- uUGCCGUAG-----------AGCUACGCCC-CGCUgCU- -5'
18585 5' -58.3 NC_004682.1 + 14905 0.73 0.202125
Target:  5'- -uCGGCGUCUCGGcUGCGaGcGGCGACc- -3'
miRNA:   3'- uuGCCGUAGAGCU-ACGC-C-CCGCUGcu -5'
18585 5' -58.3 NC_004682.1 + 43234 0.73 0.186663
Target:  5'- gGGCGGUuaccuUCgacCGAUGCGGGG-GACGAg -3'
miRNA:   3'- -UUGCCGu----AGa--GCUACGCCCCgCUGCU- -5'
18585 5' -58.3 NC_004682.1 + 24665 1.06 0.000681
Target:  5'- cAACGGCAUCUCGAUGCGGGGCGACGAg -3'
miRNA:   3'- -UUGCCGUAGAGCUACGCCCCGCUGCU- -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.