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
23424 5' -57.8 NC_005259.1 + 66205 0.66 0.653264
Target:  5'- aCGGGucaGGCGCGGUCG-CgCCGACGc -3'
miRNA:   3'- -GCUCcugUCGCGUCAGCuG-GGCUGUu -5'
23424 5' -57.8 NC_005259.1 + 39924 0.66 0.653264
Target:  5'- uCGAGGGCcGCGUcgaGGUCGuCCUugguGACGAa -3'
miRNA:   3'- -GCUCCUGuCGCG---UCAGCuGGG----CUGUU- -5'
23424 5' -57.8 NC_005259.1 + 66512 0.66 0.653264
Target:  5'- uGucGGCGGgGCGGUCccGCCUGACAAg -3'
miRNA:   3'- gCucCUGUCgCGUCAGc-UGGGCUGUU- -5'
23424 5' -57.8 NC_005259.1 + 17356 0.66 0.652196
Target:  5'- uCGAGGucggcggcuCGGCGCuggucguGGUCGACUgCGACAc -3'
miRNA:   3'- -GCUCCu--------GUCGCG-------UCAGCUGG-GCUGUu -5'
23424 5' -57.8 NC_005259.1 + 24900 0.66 0.621176
Target:  5'- cCGAGGACGGCGagcgGGUCuACaCCGAa-- -3'
miRNA:   3'- -GCUCCUGUCGCg---UCAGcUG-GGCUguu -5'
23424 5' -57.8 NC_005259.1 + 46595 0.66 0.614761
Target:  5'- cCGAGGcgaGCAGCGC-GUCGuuggcggucuuggugGCCUGACu- -3'
miRNA:   3'- -GCUCC---UGUCGCGuCAGC---------------UGGGCUGuu -5'
23424 5' -57.8 NC_005259.1 + 65660 0.66 0.610487
Target:  5'- cCGAGGucauaGCuGCGCcugucccuacUCGGCCCGACGAg -3'
miRNA:   3'- -GCUCC-----UGuCGCGuc--------AGCUGGGCUGUU- -5'
23424 5' -57.8 NC_005259.1 + 22376 0.66 0.610487
Target:  5'- -aAGGGCaaaAGCcCGGUCGGCCuCGGCGAc -3'
miRNA:   3'- gcUCCUG---UCGcGUCAGCUGG-GCUGUU- -5'
23424 5' -57.8 NC_005259.1 + 23305 0.67 0.578557
Target:  5'- uCGGGGucCGGCGCGGUCgGugUCGcCGAg -3'
miRNA:   3'- -GCUCCu-GUCGCGUCAG-CugGGCuGUU- -5'
23424 5' -57.8 NC_005259.1 + 45186 0.67 0.57221
Target:  5'- cCGAGGuCAGCGCGGugaugacgggcgaguUCGcguugaGCCCGAUg- -3'
miRNA:   3'- -GCUCCuGUCGCGUC---------------AGC------UGGGCUGuu -5'
23424 5' -57.8 NC_005259.1 + 29051 0.67 0.557467
Target:  5'- aCGAGaGCcgcgAGCGCGGuaUCGGCCCGAUc- -3'
miRNA:   3'- -GCUCcUG----UCGCGUC--AGCUGGGCUGuu -5'
23424 5' -57.8 NC_005259.1 + 35314 0.67 0.557467
Target:  5'- cCGAGGGCGGUGUguacgCGACCCcGCGu -3'
miRNA:   3'- -GCUCCUGUCGCGuca--GCUGGGcUGUu -5'
23424 5' -57.8 NC_005259.1 + 41333 0.68 0.52627
Target:  5'- -aAGGGCGGUGCcGUCGgauACCaCGACGAa -3'
miRNA:   3'- gcUCCUGUCGCGuCAGC---UGG-GCUGUU- -5'
23424 5' -57.8 NC_005259.1 + 35810 0.68 0.52627
Target:  5'- -cAGGACGGUGCcGUaCGACCCcGCAu -3'
miRNA:   3'- gcUCCUGUCGCGuCA-GCUGGGcUGUu -5'
23424 5' -57.8 NC_005259.1 + 14040 0.68 0.516014
Target:  5'- uCGAGcGGCAGCGCAucGUCGGC--GACGAg -3'
miRNA:   3'- -GCUC-CUGUCGCGU--CAGCUGggCUGUU- -5'
23424 5' -57.8 NC_005259.1 + 35658 0.69 0.479806
Target:  5'- gCGAGGGuggcCAGCGCGGUgguggugcacagcgaCGccguGCCCGGCGAg -3'
miRNA:   3'- -GCUCCU----GUCGCGUCA---------------GC----UGGGCUGUU- -5'
23424 5' -57.8 NC_005259.1 + 1233 0.71 0.333433
Target:  5'- aCGAGGACGGCuGCAagacCGGCCuCGGCAu -3'
miRNA:   3'- -GCUCCUGUCG-CGUca--GCUGG-GCUGUu -5'
23424 5' -57.8 NC_005259.1 + 68700 0.71 0.333433
Target:  5'- uCGAGGcggGCAGCGC-GUCGguGCCCGAgAAc -3'
miRNA:   3'- -GCUCC---UGUCGCGuCAGC--UGGGCUgUU- -5'
23424 5' -57.8 NC_005259.1 + 23012 0.73 0.248817
Target:  5'- cCGAGGACGGCuCGGucaucgagaUCGaACCCGACGAc -3'
miRNA:   3'- -GCUCCUGUCGcGUC---------AGC-UGGGCUGUU- -5'
23424 5' -57.8 NC_005259.1 + 18327 0.74 0.242631
Target:  5'- cCGAGGcCGGUGCguucguGGUCGACgCCGACGg -3'
miRNA:   3'- -GCUCCuGUCGCG------UCAGCUG-GGCUGUu -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.