miRNA display CGI


Results 1 - 20 of 26 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
23460 3' -60.3 NC_005259.1 + 50410 0.76 0.118678
Target:  5'- aGCGCGCCGGugcCUugaCCGGCUCGGGc -3'
miRNA:   3'- cCGCGCGGCCu--GAug-GGCUGAGUCCa -5'
23460 3' -60.3 NC_005259.1 + 65892 0.76 0.12514
Target:  5'- cGGCGggacgguccCGCCGGACaagagauaaguUACCCGACUUGGGa -3'
miRNA:   3'- -CCGC---------GCGGCCUG-----------AUGGGCUGAGUCCa -5'
23460 3' -60.3 NC_005259.1 + 57694 0.75 0.15437
Target:  5'- uGGCcagguUGCCGGGCuUGCCCGACUCgcGGGUc -3'
miRNA:   3'- -CCGc----GCGGCCUG-AUGGGCUGAG--UCCA- -5'
23460 3' -60.3 NC_005259.1 + 63686 0.74 0.175658
Target:  5'- cGGCGCGCCGGGgaucugcgcCUGCCCaGCggggaUCGGGg -3'
miRNA:   3'- -CCGCGCGGCCU---------GAUGGGcUG-----AGUCCa -5'
23460 3' -60.3 NC_005259.1 + 14654 0.71 0.26203
Target:  5'- uGGCGU---GGGCUcaGCCCGACUCGGGc -3'
miRNA:   3'- -CCGCGcggCCUGA--UGGGCUGAGUCCa -5'
23460 3' -60.3 NC_005259.1 + 11005 0.71 0.288433
Target:  5'- cGGCaccGCGCCGGAC-GCgCCGAggCAGGa -3'
miRNA:   3'- -CCG---CGCGGCCUGaUG-GGCUgaGUCCa -5'
23460 3' -60.3 NC_005259.1 + 30796 0.71 0.288433
Target:  5'- cGCGUaccGCCGGAacACCUGAgUCGGGUa -3'
miRNA:   3'- cCGCG---CGGCCUgaUGGGCUgAGUCCA- -5'
23460 3' -60.3 NC_005259.1 + 31510 0.7 0.316882
Target:  5'- -cCGCGCCGGACuUGCuuGA-UCGGGg -3'
miRNA:   3'- ccGCGCGGCCUG-AUGggCUgAGUCCa -5'
23460 3' -60.3 NC_005259.1 + 56444 0.69 0.371621
Target:  5'- --aGCGCCGGGCcACgCaGCUCAGGg -3'
miRNA:   3'- ccgCGCGGCCUGaUGgGcUGAGUCCa -5'
23460 3' -60.3 NC_005259.1 + 68711 0.68 0.40567
Target:  5'- aGCGCGUCGG--UGCCCGAgaaCUgGGGUc -3'
miRNA:   3'- cCGCGCGGCCugAUGGGCU---GAgUCCA- -5'
23460 3' -60.3 NC_005259.1 + 35997 0.68 0.40567
Target:  5'- cGGCGagGCCGGACUGCaCCGA----GGUg -3'
miRNA:   3'- -CCGCg-CGGCCUGAUG-GGCUgaguCCA- -5'
23460 3' -60.3 NC_005259.1 + 65984 0.68 0.414484
Target:  5'- aGGCGCGCCGaGcaGCcGCUCGACgu-GGUg -3'
miRNA:   3'- -CCGCGCGGC-C--UGaUGGGCUGaguCCA- -5'
23460 3' -60.3 NC_005259.1 + 8952 0.68 0.414484
Target:  5'- gGGCGCGCCguGGACggGCaCCGuGC-CGGGa -3'
miRNA:   3'- -CCGCGCGG--CCUGa-UG-GGC-UGaGUCCa -5'
23460 3' -60.3 NC_005259.1 + 27858 0.68 0.414484
Target:  5'- cGCGCGCCGuacGACcGCCCu-CUUGGGUg -3'
miRNA:   3'- cCGCGCGGC---CUGaUGGGcuGAGUCCA- -5'
23460 3' -60.3 NC_005259.1 + 28030 0.68 0.423415
Target:  5'- cGCGCGuuGGcCaGCCaCGGCUUGGGa -3'
miRNA:   3'- cCGCGCggCCuGaUGG-GCUGAGUCCa -5'
23460 3' -60.3 NC_005259.1 + 38298 0.67 0.441616
Target:  5'- cGGCGCugaucGUCGGACcgAUCUGugUCAuGGUg -3'
miRNA:   3'- -CCGCG-----CGGCCUGa-UGGGCugAGU-CCA- -5'
23460 3' -60.3 NC_005259.1 + 30829 0.67 0.441616
Target:  5'- cGGCGCGCCGaggucGGCaACCUGcacCUCAaGGUa -3'
miRNA:   3'- -CCGCGCGGC-----CUGaUGGGCu--GAGU-CCA- -5'
23460 3' -60.3 NC_005259.1 + 24907 0.67 0.450882
Target:  5'- cGGCGaGCgGGuCUACaCCGAauaUCAGGa -3'
miRNA:   3'- -CCGCgCGgCCuGAUG-GGCUg--AGUCCa -5'
23460 3' -60.3 NC_005259.1 + 34228 0.67 0.473544
Target:  5'- cGGCGCuGCCGGuCUugCCGuugaacguguccgacACaUCGGGc -3'
miRNA:   3'- -CCGCG-CGGCCuGAugGGC---------------UG-AGUCCa -5'
23460 3' -60.3 NC_005259.1 + 55616 0.67 0.478337
Target:  5'- cGCGCGCCuuggccgggaucaGGGCcuguagacgaGCCCGuggGCUCAGGUc -3'
miRNA:   3'- cCGCGCGG-------------CCUGa---------UGGGC---UGAGUCCA- -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.