miRNA display CGI


Results 1 - 20 of 25 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
1541 3' -60 NC_001347.2 + 182190 0.66 0.885111
Target:  5'- -gGGcCGGCCcucggggugcggGUGGcGGGcuGCGUCGCCu -3'
miRNA:   3'- ggUCaGCCGG------------CACCuCUC--CGCAGCGG- -5'
1541 3' -60 NC_001347.2 + 153247 0.66 0.885111
Target:  5'- --cGUCGGCCGgc--GAcGGCGguUCGCCg -3'
miRNA:   3'- gguCAGCCGGCaccuCU-CCGC--AGCGG- -5'
1541 3' -60 NC_001347.2 + 228594 0.66 0.885111
Target:  5'- uCCAGUCagcgaGGCCGUcGcGuuGGCG-CGCCa -3'
miRNA:   3'- -GGUCAG-----CCGGCAcCuCu-CCGCaGCGG- -5'
1541 3' -60 NC_001347.2 + 174644 0.66 0.881208
Target:  5'- gCGGUCGGucuacgucuacucgcCCGUGGuGGAaucgcuguaccuGGUGUCGCg -3'
miRNA:   3'- gGUCAGCC---------------GGCACC-UCU------------CCGCAGCGg -5'
1541 3' -60 NC_001347.2 + 178053 0.66 0.878568
Target:  5'- gCAGaUGGaCGUGGGGggacugauccAGGCGUCGgCg -3'
miRNA:   3'- gGUCaGCCgGCACCUC----------UCCGCAGCgG- -5'
1541 3' -60 NC_001347.2 + 185335 0.66 0.878568
Target:  5'- aUAGUauaGGuCCGUGcGAGcAGGCcGcCGCCg -3'
miRNA:   3'- gGUCAg--CC-GGCAC-CUC-UCCG-CaGCGG- -5'
1541 3' -60 NC_001347.2 + 225629 0.66 0.871835
Target:  5'- aCAG-CaGUCGUGGA-AGG-GUCGCCa -3'
miRNA:   3'- gGUCaGcCGGCACCUcUCCgCAGCGG- -5'
1541 3' -60 NC_001347.2 + 684 0.66 0.871835
Target:  5'- cCCAGUccaCGGCCuuccagacugcGUGGcGccaAGGCGgCGCCa -3'
miRNA:   3'- -GGUCA---GCCGG-----------CACCuC---UCCGCaGCGG- -5'
1541 3' -60 NC_001347.2 + 166619 0.66 0.871835
Target:  5'- aCC-GUCacGCCGUccuccGAGAGGCG-CGCCc -3'
miRNA:   3'- -GGuCAGc-CGGCAc----CUCUCCGCaGCGG- -5'
1541 3' -60 NC_001347.2 + 162169 0.66 0.864915
Target:  5'- -aAGUCGGCgG-GcGGGGGCGUgauccgaccCGCCa -3'
miRNA:   3'- ggUCAGCCGgCaCcUCUCCGCA---------GCGG- -5'
1541 3' -60 NC_001347.2 + 75858 0.66 0.857813
Target:  5'- --cGUCGGCCGc---GGGGCGcagCGCCu -3'
miRNA:   3'- gguCAGCCGGCaccuCUCCGCa--GCGG- -5'
1541 3' -60 NC_001347.2 + 92253 0.66 0.857813
Target:  5'- cCCGca-GGCCGUGGccgccgccauGAGGCG-CGUCa -3'
miRNA:   3'- -GGUcagCCGGCACCu---------CUCCGCaGCGG- -5'
1541 3' -60 NC_001347.2 + 77270 0.66 0.857093
Target:  5'- -uGG-CGGCCGacGAGAgguugaggaucaaGGCGUCGUCg -3'
miRNA:   3'- ggUCaGCCGGCacCUCU-------------CCGCAGCGG- -5'
1541 3' -60 NC_001347.2 + 161642 0.67 0.843083
Target:  5'- aCCAuGUCGacccgcGgCGUGGAcgcgccguuGGCGUCGCCu -3'
miRNA:   3'- -GGU-CAGC------CgGCACCUcu-------CCGCAGCGG- -5'
1541 3' -60 NC_001347.2 + 108156 0.68 0.769284
Target:  5'- gCGG-CGGCCGcaGAG-GGCG-CGCCg -3'
miRNA:   3'- gGUCaGCCGGCacCUCuCCGCaGCGG- -5'
1541 3' -60 NC_001347.2 + 44089 0.68 0.760459
Target:  5'- gUAGUCGGgaCGgaGGAGAGGCGaUGCa -3'
miRNA:   3'- gGUCAGCCg-GCa-CCUCUCCGCaGCGg -5'
1541 3' -60 NC_001347.2 + 142998 0.69 0.705696
Target:  5'- gCCGGcggCGGCgGUGGuggaGGAGGUugCGCCg -3'
miRNA:   3'- -GGUCa--GCCGgCACC----UCUCCGcaGCGG- -5'
1541 3' -60 NC_001347.2 + 147919 0.69 0.705696
Target:  5'- gCGGU-GGCCuccGUGGucgaAGGCGUUGCCa -3'
miRNA:   3'- gGUCAgCCGG---CACCuc--UCCGCAGCGG- -5'
1541 3' -60 NC_001347.2 + 135538 0.7 0.677485
Target:  5'- uCCGGgacCGauuGCCGUcGAGccgGGGCGUCGCCc -3'
miRNA:   3'- -GGUCa--GC---CGGCAcCUC---UCCGCAGCGG- -5'
1541 3' -60 NC_001347.2 + 74115 0.7 0.659455
Target:  5'- aCGGUCaGCCGcGGGGuugauacccagcgacGGCGUCGCUc -3'
miRNA:   3'- gGUCAGcCGGCaCCUCu--------------CCGCAGCGG- -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.