miRNA display CGI


Results 1 - 20 of 99 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
26709 3' -68.6 NC_005808.1 + 42080 0.7 0.071031
Target:  5'- gGCCGaacagaaccGCCUGCaaGCCGCCGcGGCGCa -3'
miRNA:   3'- gCGGUcc-------CGGACGc-CGGCGGC-CCGCG- -5'
26709 3' -68.6 NC_005808.1 + 41915 0.66 0.148906
Target:  5'- gCGCCc-GGCCgGC-GCCGCCGuaGGCGg -3'
miRNA:   3'- -GCGGucCCGGaCGcCGGCGGC--CCGCg -5'
26709 3' -68.6 NC_005808.1 + 41548 0.66 0.145113
Target:  5'- aCGCCGGuucgcGGCgacaUGCuGCCGCCGGcCGUg -3'
miRNA:   3'- -GCGGUC-----CCGg---ACGcCGGCGGCCcGCG- -5'
26709 3' -68.6 NC_005808.1 + 41280 0.72 0.048588
Target:  5'- gCGCUugucGGCCUgGUGGCCGUCgcccuGGGCGCg -3'
miRNA:   3'- -GCGGuc--CCGGA-CGCCGGCGG-----CCCGCG- -5'
26709 3' -68.6 NC_005808.1 + 41222 0.67 0.111778
Target:  5'- cCGCgAGGaCUUGCgcuucGGUCGCCGGauGCGCa -3'
miRNA:   3'- -GCGgUCCcGGACG-----CCGGCGGCC--CGCG- -5'
26709 3' -68.6 NC_005808.1 + 41110 0.68 0.09212
Target:  5'- cCGaCCAGcacugcgauaccccGGCCUGCcaggaGGCCGCCGaccGCGCc -3'
miRNA:   3'- -GC-GGUC--------------CCGGACG-----CCGGCGGCc--CGCG- -5'
26709 3' -68.6 NC_005808.1 + 39512 0.67 0.124153
Target:  5'- uGCCgcgugucgaAGGGCaugggUGCGGCU--CGGGCGCu -3'
miRNA:   3'- gCGG---------UCCCGg----ACGCCGGcgGCCCGCG- -5'
26709 3' -68.6 NC_005808.1 + 38897 0.72 0.04728
Target:  5'- gCGCCgcauGGGGCa-GCGcGUCGCCGGGUGg -3'
miRNA:   3'- -GCGG----UCCCGgaCGC-CGGCGGCCCGCg -5'
26709 3' -68.6 NC_005808.1 + 38551 0.67 0.111778
Target:  5'- gGCCGcuGGCCUGCcGCuCGCCGcGGCcgGCu -3'
miRNA:   3'- gCGGUc-CCGGACGcCG-GCGGC-CCG--CG- -5'
26709 3' -68.6 NC_005808.1 + 38090 0.68 0.108869
Target:  5'- gCGCUcaAGcGCCUGUGG-CGCCGcGCGCa -3'
miRNA:   3'- -GCGG--UCcCGGACGCCgGCGGCcCGCG- -5'
26709 3' -68.6 NC_005808.1 + 37794 0.67 0.120945
Target:  5'- gGCCAGcaaucccgcaGcGCCaGcCGGCgUGCUGGGCGCa -3'
miRNA:   3'- gCGGUC----------C-CGGaC-GCCG-GCGGCCCGCG- -5'
26709 3' -68.6 NC_005808.1 + 37438 0.7 0.07297
Target:  5'- uCGCCaAGGGCgUGagcagcgaCGGCCGCCu-GCGCg -3'
miRNA:   3'- -GCGG-UCCCGgAC--------GCCGGCGGccCGCG- -5'
26709 3' -68.6 NC_005808.1 + 36246 0.71 0.058781
Target:  5'- gCGCCccGGCCUuCGG--GCCGGGCGCu -3'
miRNA:   3'- -GCGGucCCGGAcGCCggCGGCCCGCG- -5'
26709 3' -68.6 NC_005808.1 + 33326 0.67 0.126116
Target:  5'- aGCCGguguaccGGGCCgaccgcuuccUGCgguauggugaacugGaacuGCCGCCGGGCGCg -3'
miRNA:   3'- gCGGU-------CCCGG----------ACG--------------C----CGGCGGCCCGCG- -5'
26709 3' -68.6 NC_005808.1 + 32917 0.68 0.097931
Target:  5'- gGCCAcGGCCUgcacgGCGGCUguucgGCCaGGGCGa -3'
miRNA:   3'- gCGGUcCCGGA-----CGCCGG-----CGG-CCCGCg -5'
26709 3' -68.6 NC_005808.1 + 32617 0.68 0.09212
Target:  5'- gCGUCaAGGGCCgcgacgccGCGGUCGCUGuccugucgaaguucGGCGCc -3'
miRNA:   3'- -GCGG-UCCCGGa-------CGCCGGCGGC--------------CCGCG- -5'
26709 3' -68.6 NC_005808.1 + 32350 0.66 0.148906
Target:  5'- cCGcCCAGGuCgCUGCGGUCGCCGccgaggccccGGcCGCc -3'
miRNA:   3'- -GC-GGUCCcG-GACGCCGGCGGC----------CC-GCG- -5'
26709 3' -68.6 NC_005808.1 + 31066 0.66 0.13779
Target:  5'- gGCCcgaacaucaGGGGCCUG-GuGCCGCUGcucaccucGGUGCa -3'
miRNA:   3'- gCGG---------UCCCGGACgC-CGGCGGC--------CCGCG- -5'
26709 3' -68.6 NC_005808.1 + 31006 0.7 0.07297
Target:  5'- uGcCCGGcGGCCagccgGCGGCC-CUGGGCGg -3'
miRNA:   3'- gC-GGUC-CCGGa----CGCCGGcGGCCCGCg -5'
26709 3' -68.6 NC_005808.1 + 30180 0.68 0.103264
Target:  5'- gCGCCAGucggugaaGGCCaUGaaguaGCCGCCGGGCu- -3'
miRNA:   3'- -GCGGUC--------CCGG-ACgc---CGGCGGCCCGcg -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.