miRNA display CGI


Results 1 - 20 of 34 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
23203 3' -56.4 NC_005259.1 + 26691 0.66 0.749769
Target:  5'- -aUCGAGGCGGgGAacUCGgGGUUGAuuuccucgaccaucgGGCc -3'
miRNA:   3'- cgAGUUCCGCCgCU--AGU-CCAGCU---------------CCG- -5'
23203 3' -56.4 NC_005259.1 + 8649 0.66 0.746737
Target:  5'- gGCaCGAGGCuGUGGUCGGGcugccacgcgggcaaCGGGGCc -3'
miRNA:   3'- -CGaGUUCCGcCGCUAGUCCa--------------GCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 58912 0.66 0.725251
Target:  5'- gGCUCGu--CGGCGGUCuuGUCGucGGCg -3'
miRNA:   3'- -CGAGUuccGCCGCUAGucCAGCu-CCG- -5'
23203 3' -56.4 NC_005259.1 + 68874 0.66 0.725251
Target:  5'- cGCgCcGGGCGcGcCGAUgAGGUagaUGAGGCg -3'
miRNA:   3'- -CGaGuUCCGC-C-GCUAgUCCA---GCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 19145 0.66 0.714877
Target:  5'- --gUAAGGCacacacCGAUCAgGGUCGAGGUu -3'
miRNA:   3'- cgaGUUCCGcc----GCUAGU-CCAGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 19646 0.66 0.713836
Target:  5'- cGCUCAccggcaccgccucGGGCaGCcgcuacauccccGGUCAGGUCGggaucgagcAGGCu -3'
miRNA:   3'- -CGAGU-------------UCCGcCG------------CUAGUCCAGC---------UCCG- -5'
23203 3' -56.4 NC_005259.1 + 17802 0.67 0.693909
Target:  5'- cGCgauagCGAGGcCGGUGAgcUCAG--CGAGGCc -3'
miRNA:   3'- -CGa----GUUCC-GCCGCU--AGUCcaGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 51263 0.67 0.683335
Target:  5'- gGCUC---GCGGUGGUCAcGGUgCGcGGCa -3'
miRNA:   3'- -CGAGuucCGCCGCUAGU-CCA-GCuCCG- -5'
23203 3' -56.4 NC_005259.1 + 33309 0.67 0.683335
Target:  5'- gGCUCGAucccgccgucGGCGGUcacgcggaaguGAUCgGGGUCGAuGCa -3'
miRNA:   3'- -CGAGUU----------CCGCCG-----------CUAG-UCCAGCUcCG- -5'
23203 3' -56.4 NC_005259.1 + 58404 0.67 0.683335
Target:  5'- aGC-CAccGGCGGCGAUCAGaGaUCcaccGGGCa -3'
miRNA:   3'- -CGaGUu-CCGCCGCUAGUC-C-AGc---UCCG- -5'
23203 3' -56.4 NC_005259.1 + 19205 0.67 0.662057
Target:  5'- aGCUCGuggugcGGGCGGCGAcgUGGGacacCGAgucGGCg -3'
miRNA:   3'- -CGAGU------UCCGCCGCUa-GUCCa---GCU---CCG- -5'
23203 3' -56.4 NC_005259.1 + 23348 0.67 0.651375
Target:  5'- gGCUCGAGGCuGCcugCgAGGccgcCGAGGCa -3'
miRNA:   3'- -CGAGUUCCGcCGcuaG-UCCa---GCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 27139 0.67 0.651375
Target:  5'- uUUgAGGGCGGCug-CGGuGUUGGGGCc -3'
miRNA:   3'- cGAgUUCCGCCGcuaGUC-CAGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 17355 0.68 0.629968
Target:  5'- -gUCGAGGuCGGCGGcUCGgcgcuGGUCGuGGUc -3'
miRNA:   3'- cgAGUUCC-GCCGCU-AGU-----CCAGCuCCG- -5'
23203 3' -56.4 NC_005259.1 + 778 0.68 0.618192
Target:  5'- cGC-CGAGGCGGCugcccucGGUUGGGUggccaaGGGGCc -3'
miRNA:   3'- -CGaGUUCCGCCG-------CUAGUCCAg-----CUCCG- -5'
23203 3' -56.4 NC_005259.1 + 16676 0.68 0.597893
Target:  5'- cCUCGAuguGGuCGGCGAUCcuGGGcacCGAGGUg -3'
miRNA:   3'- cGAGUU---CC-GCCGCUAG--UCCa--GCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 23285 0.68 0.597893
Target:  5'- --cCGGGcGCGGUGGUUGGGuaUCGGGGUc -3'
miRNA:   3'- cgaGUUC-CGCCGCUAGUCC--AGCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 17171 0.69 0.555546
Target:  5'- aGCUgacgaCAAGGCGGCG--CAGGaagccgcgcgUGAGGCg -3'
miRNA:   3'- -CGA-----GUUCCGCCGCuaGUCCa---------GCUCCG- -5'
23203 3' -56.4 NC_005259.1 + 25413 0.69 0.545085
Target:  5'- cCUCAaccGGGaCGGCGA---GGUCGAGGa -3'
miRNA:   3'- cGAGU---UCC-GCCGCUaguCCAGCUCCg -5'
23203 3' -56.4 NC_005259.1 + 51139 0.69 0.534689
Target:  5'- -gUCGGGGCGGCcauGAgcgcguUCGGGUUGAccguGGCg -3'
miRNA:   3'- cgAGUUCCGCCG---CU------AGUCCAGCU----CCG- -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.