miRNA display CGI


Results 1 - 20 of 21 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
23300 3' -52.6 NC_005259.1 + 54083 0.66 0.909741
Target:  5'- aGgUCGGUGGCgUCGcgCAUCaccggGGUCAa -3'
miRNA:   3'- -CgAGCCGCUG-AGCuaGUAGga---CUAGU- -5'
23300 3' -52.6 NC_005259.1 + 19853 0.66 0.903123
Target:  5'- cGCUCGGUGuggcGCUCGcgCccgCCggGAUCGc -3'
miRNA:   3'- -CGAGCCGC----UGAGCuaGua-GGa-CUAGU- -5'
23300 3' -52.6 NC_005259.1 + 53020 0.66 0.903123
Target:  5'- cGCUgCGGUGGCgUCGAggCAUCgUGAccUCGc -3'
miRNA:   3'- -CGA-GCCGCUG-AGCUa-GUAGgACU--AGU- -5'
23300 3' -52.6 NC_005259.1 + 52912 0.66 0.896236
Target:  5'- uGCUCacgaccGcCGACUCGAUgG-CCUGGUCGc -3'
miRNA:   3'- -CGAGc-----C-GCUGAGCUAgUaGGACUAGU- -5'
23300 3' -52.6 NC_005259.1 + 47325 0.66 0.896236
Target:  5'- --cCGGCGGcCUUGGUCAgccCCgUGAUCGu -3'
miRNA:   3'- cgaGCCGCU-GAGCUAGUa--GG-ACUAGU- -5'
23300 3' -52.6 NC_005259.1 + 61509 0.66 0.88167
Target:  5'- cGCUCGGUGuGC-CGGUCGaCCUcGUCGg -3'
miRNA:   3'- -CGAGCCGC-UGaGCUAGUaGGAcUAGU- -5'
23300 3' -52.6 NC_005259.1 + 10430 0.66 0.88167
Target:  5'- cCUCGGCGAgCUCGAcaucgaguggcUCGacggcggugUCCUGcgCAg -3'
miRNA:   3'- cGAGCCGCU-GAGCU-----------AGU---------AGGACuaGU- -5'
23300 3' -52.6 NC_005259.1 + 50448 0.67 0.857923
Target:  5'- gGCUCGGgGucGC-CGGUC-UCgCUGAUCAc -3'
miRNA:   3'- -CGAGCCgC--UGaGCUAGuAG-GACUAGU- -5'
23300 3' -52.6 NC_005259.1 + 15939 0.67 0.857923
Target:  5'- cGCUCGGCGAaaugGAUgGUCaaGGUCGa -3'
miRNA:   3'- -CGAGCCGCUgag-CUAgUAGgaCUAGU- -5'
23300 3' -52.6 NC_005259.1 + 51797 0.68 0.832063
Target:  5'- cGCUCGGCGGgUCGGUCAgCUcaggCAg -3'
miRNA:   3'- -CGAGCCGCUgAGCUAGUaGGacuaGU- -5'
23300 3' -52.6 NC_005259.1 + 62866 0.69 0.788845
Target:  5'- cGCUCGGCGcgagguaggccGCUCGGUCAuugagcgacgccgcuUCCUcGGUa- -3'
miRNA:   3'- -CGAGCCGC-----------UGAGCUAGU---------------AGGA-CUAgu -5'
23300 3' -52.6 NC_005259.1 + 29230 0.69 0.78491
Target:  5'- cCUCGGCGcguuCcUGAUCAUCCUGuccAUCGu -3'
miRNA:   3'- cGAGCCGCu---GaGCUAGUAGGAC---UAGU- -5'
23300 3' -52.6 NC_005259.1 + 15219 0.69 0.774961
Target:  5'- cGCUCGGCG-CUCGG-CAUCaacGUCGa -3'
miRNA:   3'- -CGAGCCGCuGAGCUaGUAGgacUAGU- -5'
23300 3' -52.6 NC_005259.1 + 66465 0.69 0.774961
Target:  5'- aCUCGGUGACgcugguggCGGUgGUCUcGAUCAu -3'
miRNA:   3'- cGAGCCGCUGa-------GCUAgUAGGaCUAGU- -5'
23300 3' -52.6 NC_005259.1 + 13115 0.69 0.761811
Target:  5'- cGCUCGGCGGCUaCGAccagcgcacgguguUCggCUcGAUCAu -3'
miRNA:   3'- -CGAGCCGCUGA-GCU--------------AGuaGGaCUAGU- -5'
23300 3' -52.6 NC_005259.1 + 42770 0.71 0.625384
Target:  5'- uGCUCGGCGGuCUCGGggCcgCCaccGAUCAc -3'
miRNA:   3'- -CGAGCCGCU-GAGCUa-GuaGGa--CUAGU- -5'
23300 3' -52.6 NC_005259.1 + 10930 0.73 0.559915
Target:  5'- aGCUCGGCGaACUCGGugUCGaCCUcGUCGg -3'
miRNA:   3'- -CGAGCCGC-UGAGCU--AGUaGGAcUAGU- -5'
23300 3' -52.6 NC_005259.1 + 23015 0.73 0.517306
Target:  5'- ---aGGaCGGCUCGGUCAUCgaGAUCGa -3'
miRNA:   3'- cgagCC-GCUGAGCUAGUAGgaCUAGU- -5'
23300 3' -52.6 NC_005259.1 + 17359 0.74 0.486218
Target:  5'- aGgUCGGCGGCUCGGcgcUgGUCgUGGUCGa -3'
miRNA:   3'- -CgAGCCGCUGAGCU---AgUAGgACUAGU- -5'
23300 3' -52.6 NC_005259.1 + 60106 0.76 0.354934
Target:  5'- aGCUCGaccaGCGACUCGAuaucggcggccUCGUCCUGcgCGg -3'
miRNA:   3'- -CGAGC----CGCUGAGCU-----------AGUAGGACuaGU- -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.