miRNA display CGI


Results 1 - 17 of 17 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
30933 3' -62.8 NC_006552.1 + 13852 0.66 0.342474
Target:  5'- aGGCGCcGGUacugGGCCaGGUaaucGGCCcGCa -3'
miRNA:   3'- aUCGCGaCCGa---CCGGaCCA----CCGGuCG- -5'
30933 3' -62.8 NC_006552.1 + 60281 0.66 0.334596
Target:  5'- -cGCGCcacccGGCUGGcCCUGGgcaucGGCCccugGGUg -3'
miRNA:   3'- auCGCGa----CCGACC-GGACCa----CCGG----UCG- -5'
30933 3' -62.8 NC_006552.1 + 59609 0.66 0.326852
Target:  5'- aAGCGCaGGCc-GCCUGGcagaacucgGGCCGGg -3'
miRNA:   3'- aUCGCGaCCGacCGGACCa--------CCGGUCg -5'
30933 3' -62.8 NC_006552.1 + 14305 0.66 0.311764
Target:  5'- cGGCGCgGGCcugGGCCUcGGccUGuaaccucuuuGCCAGCa -3'
miRNA:   3'- aUCGCGaCCGa--CCGGA-CC--AC----------CGGUCG- -5'
30933 3' -62.8 NC_006552.1 + 28915 0.66 0.311024
Target:  5'- cGGUGCUcuggaauccggccGGCUcGGCaaGGUGaGCCAGUu -3'
miRNA:   3'- aUCGCGA-------------CCGA-CCGgaCCAC-CGGUCG- -5'
30933 3' -62.8 NC_006552.1 + 43187 0.67 0.304421
Target:  5'- aGGUGCUGGUcguaGGCCUgcucGGUcuuguucaucuGGCCGGUu -3'
miRNA:   3'- aUCGCGACCGa---CCGGA----CCA-----------CCGGUCG- -5'
30933 3' -62.8 NC_006552.1 + 53998 0.67 0.297212
Target:  5'- aGGCGCgUGGCccUGGcCCUGGccGCgAGCc -3'
miRNA:   3'- aUCGCG-ACCG--ACC-GGACCacCGgUCG- -5'
30933 3' -62.8 NC_006552.1 + 57476 0.67 0.290135
Target:  5'- gUGGCGCcGGUacgGGCUUGGaaaugGGCCugGGCc -3'
miRNA:   3'- -AUCGCGaCCGa--CCGGACCa----CCGG--UCG- -5'
30933 3' -62.8 NC_006552.1 + 5058 0.67 0.290135
Target:  5'- aAGCGU--GCUGGCCaccaGGCCAGCc -3'
miRNA:   3'- aUCGCGacCGACCGGaccaCCGGUCG- -5'
30933 3' -62.8 NC_006552.1 + 3574 0.67 0.283192
Target:  5'- aGGUGCUGGCcGaGCCgccGGc-GCCGGCa -3'
miRNA:   3'- aUCGCGACCGaC-CGGa--CCacCGGUCG- -5'
30933 3' -62.8 NC_006552.1 + 64599 0.67 0.263151
Target:  5'- gUGGUaCUGGUcaUGGcCCUGGUGcuCCAGCa -3'
miRNA:   3'- -AUCGcGACCG--ACC-GGACCACc-GGUCG- -5'
30933 3' -62.8 NC_006552.1 + 64492 0.68 0.256732
Target:  5'- --aCGCUGGC-GGCCUGGcaGGCgGGg -3'
miRNA:   3'- aucGCGACCGaCCGGACCa-CCGgUCg -5'
30933 3' -62.8 NC_006552.1 + 2742 0.68 0.237645
Target:  5'- -cGCGCUuugccccguuucaGGCUGGUUcgagugGGUGGCCgagGGCg -3'
miRNA:   3'- auCGCGA-------------CCGACCGGa-----CCACCGG---UCG- -5'
30933 3' -62.8 NC_006552.1 + 19805 0.69 0.220879
Target:  5'- --uCGCUcaGGUUGGCCUgcagGGUGGCCuuguaGGCg -3'
miRNA:   3'- aucGCGA--CCGACCGGA----CCACCGG-----UCG- -5'
30933 3' -62.8 NC_006552.1 + 50335 0.71 0.149554
Target:  5'- cGGCGU--GCUGGcCCUGGUGGCUccguuuuacGGCu -3'
miRNA:   3'- aUCGCGacCGACC-GGACCACCGG---------UCG- -5'
30933 3' -62.8 NC_006552.1 + 12639 0.76 0.067827
Target:  5'- cGGCGCUGGCuacgcgggucuUGGCCUGuGccuUGGCCuGCu -3'
miRNA:   3'- aUCGCGACCG-----------ACCGGAC-C---ACCGGuCG- -5'
30933 3' -62.8 NC_006552.1 + 12949 0.82 0.021198
Target:  5'- -cGCGCUGGCcuUGGCCUGGcggugcguucgaGGCCAGCa -3'
miRNA:   3'- auCGCGACCG--ACCGGACCa-----------CCGGUCG- -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.