miRNA display CGI


Results 1 - 20 of 22 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
28161 3' -56.4 NC_005887.1 + 26596 0.66 0.555638
Target:  5'- cGGCGCCGuucGCGaGCUGcaggcauuucAUCGUCUUg -3'
miRNA:   3'- -UCGCGGCuuuCGCaCGAC----------UGGCAGAA- -5'
28161 3' -56.4 NC_005887.1 + 26014 0.66 0.555638
Target:  5'- cGGCGUCGggGGCGagGCU-ACCGg--- -3'
miRNA:   3'- -UCGCGGCuuUCGCa-CGAcUGGCagaa -5'
28161 3' -56.4 NC_005887.1 + 22942 0.66 0.544603
Target:  5'- cAGCGCgCGAGgaucugauAGCGgccgGC-GGCCGUCg- -3'
miRNA:   3'- -UCGCG-GCUU--------UCGCa---CGaCUGGCAGaa -5'
28161 3' -56.4 NC_005887.1 + 15393 0.66 0.53364
Target:  5'- cGCGCUGAucGCGcGCgggcagcgGAUCGUCg- -3'
miRNA:   3'- uCGCGGCUuuCGCaCGa-------CUGGCAGaa -5'
28161 3' -56.4 NC_005887.1 + 36287 0.66 0.511961
Target:  5'- uGGUGCCucGAAAGCGUGCUcgacGCCGa--- -3'
miRNA:   3'- -UCGCGG--CUUUCGCACGAc---UGGCagaa -5'
28161 3' -56.4 NC_005887.1 + 31009 0.66 0.511961
Target:  5'- gGGCGCCGAcaucaccgccGAGCGcGCUGugCa---- -3'
miRNA:   3'- -UCGCGGCU----------UUCGCaCGACugGcagaa -5'
28161 3' -56.4 NC_005887.1 + 7605 0.66 0.511961
Target:  5'- cGGCGCCGGuugaucgauGGGCGgcgacUGCUGcCCGUUc- -3'
miRNA:   3'- -UCGCGGCU---------UUCGC-----ACGACuGGCAGaa -5'
28161 3' -56.4 NC_005887.1 + 10420 0.67 0.501258
Target:  5'- aGGCGUuaCGGucGCgGUGCUGACCGa--- -3'
miRNA:   3'- -UCGCG--GCUuuCG-CACGACUGGCagaa -5'
28161 3' -56.4 NC_005887.1 + 28093 0.67 0.490654
Target:  5'- -aUGCCGuuuaccGGGGCGUGCgUGACgGUCUg -3'
miRNA:   3'- ucGCGGC------UUUCGCACG-ACUGgCAGAa -5'
28161 3' -56.4 NC_005887.1 + 12981 0.67 0.480156
Target:  5'- cGCGCucgCGAAaccGGCGUGCUGGCuCGcCg- -3'
miRNA:   3'- uCGCG---GCUU---UCGCACGACUG-GCaGaa -5'
28161 3' -56.4 NC_005887.1 + 14643 0.67 0.469768
Target:  5'- cGGCaGCCGGc-GCgGUGCUGcCCGUCg- -3'
miRNA:   3'- -UCG-CGGCUuuCG-CACGACuGGCAGaa -5'
28161 3' -56.4 NC_005887.1 + 11421 0.68 0.419659
Target:  5'- cGCGCUGAucaggcucAGUGUGCUcagcguaccGGCCGUCg- -3'
miRNA:   3'- uCGCGGCUu-------UCGCACGA---------CUGGCAGaa -5'
28161 3' -56.4 NC_005887.1 + 33882 0.69 0.364012
Target:  5'- cGCGCCGAccugacacccGCGUGgUGGCCGUg-- -3'
miRNA:   3'- uCGCGGCUuu--------CGCACgACUGGCAgaa -5'
28161 3' -56.4 NC_005887.1 + 11212 0.69 0.355248
Target:  5'- cGuCGCCGAAGGCGUGC--GCCGg--- -3'
miRNA:   3'- uC-GCGGCUUUCGCACGacUGGCagaa -5'
28161 3' -56.4 NC_005887.1 + 37235 0.69 0.344078
Target:  5'- --aGCCGAcgcaggagaacgugAAGCG-GCUGAUCGUCUUc -3'
miRNA:   3'- ucgCGGCU--------------UUCGCaCGACUGGCAGAA- -5'
28161 3' -56.4 NC_005887.1 + 10106 0.7 0.329856
Target:  5'- cGCGCCGAcGGCcaGCUGAUCGgCUg -3'
miRNA:   3'- uCGCGGCUuUCGcaCGACUGGCaGAa -5'
28161 3' -56.4 NC_005887.1 + 13116 0.7 0.329034
Target:  5'- cGUGCCGAaggucgacaccucGAGCGUGCcgGGCCucGUCUc -3'
miRNA:   3'- uCGCGGCU-------------UUCGCACGa-CUGG--CAGAa -5'
28161 3' -56.4 NC_005887.1 + 27594 0.7 0.298123
Target:  5'- cGCGCCGucGAGCGUcgugucgaaggcGCUGAuaCCGUCg- -3'
miRNA:   3'- uCGCGGCu-UUCGCA------------CGACU--GGCAGaa -5'
28161 3' -56.4 NC_005887.1 + 40623 0.71 0.268808
Target:  5'- cGCGCCGAGAacuCGUGCgcgagcgccaGACCGUCg- -3'
miRNA:   3'- uCGCGGCUUUc--GCACGa---------CUGGCAGaa -5'
28161 3' -56.4 NC_005887.1 + 5063 0.72 0.225582
Target:  5'- cGCGCCGGAAGaucagcccgcauaccCGUGCgGGCUGUCg- -3'
miRNA:   3'- uCGCGGCUUUC---------------GCACGaCUGGCAGaa -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.