miRNA display CGI


Results 1 - 20 of 40 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
23277 3' -54.5 NC_005259.1 + 58200 0.66 0.845981
Target:  5'- cCGUGGGcuuGCCGGUGucagggucaGUgGCCUcGAGCu -3'
miRNA:   3'- -GCAUCC---UGGCUAUg--------CGgCGGAaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 33117 0.66 0.837404
Target:  5'- uGUAGGGCCacGcgGCaGCCGCCgc--GCg -3'
miRNA:   3'- gCAUCCUGG--CuaUG-CGGCGGaacuCG- -5'
23277 3' -54.5 NC_005259.1 + 47951 0.66 0.833037
Target:  5'- aCGgcGGuGCCGAUggccgccGCGCCGCCcgcgaauaugccGGGCa -3'
miRNA:   3'- -GCauCC-UGGCUA-------UGCGGCGGaa----------CUCG- -5'
23277 3' -54.5 NC_005259.1 + 67074 0.66 0.828619
Target:  5'- --aAGGGCCagcgugACGCCGaCCUUG-GCc -3'
miRNA:   3'- gcaUCCUGGcua---UGCGGC-GGAACuCG- -5'
23277 3' -54.5 NC_005259.1 + 8291 0.66 0.828619
Target:  5'- gCGcGGGcACCcgcacgGAaACGCCGCCUUgucgGAGCu -3'
miRNA:   3'- -GCaUCC-UGG------CUaUGCGGCGGAA----CUCG- -5'
23277 3' -54.5 NC_005259.1 + 63578 0.66 0.828619
Target:  5'- --cGGGAU--AUACGCCGCCU--GGCu -3'
miRNA:   3'- gcaUCCUGgcUAUGCGGCGGAacUCG- -5'
23277 3' -54.5 NC_005259.1 + 52051 0.66 0.828619
Target:  5'- cCGUcgAGGAUCGcgACGCCGuCCUccGAcauGCg -3'
miRNA:   3'- -GCA--UCCUGGCuaUGCGGC-GGAa-CU---CG- -5'
23277 3' -54.5 NC_005259.1 + 18656 0.66 0.819634
Target:  5'- ----uGGCgCGAUAUGCCGCCgcccGAGUa -3'
miRNA:   3'- gcaucCUG-GCUAUGCGGCGGaa--CUCG- -5'
23277 3' -54.5 NC_005259.1 + 50679 0.66 0.819634
Target:  5'- gCGUcGGuGCCGAcgagGCGCUGCucgucgucgcgCUUGAGCc -3'
miRNA:   3'- -GCAuCC-UGGCUa---UGCGGCG-----------GAACUCG- -5'
23277 3' -54.5 NC_005259.1 + 56307 0.66 0.819634
Target:  5'- aCGUGgccGGACCcu--CGUCGCCgucGAGCa -3'
miRNA:   3'- -GCAU---CCUGGcuauGCGGCGGaa-CUCG- -5'
23277 3' -54.5 NC_005259.1 + 9086 0.66 0.810459
Target:  5'- -aUAGGcCCGuUGC-CCGCCgaGGGCg -3'
miRNA:   3'- gcAUCCuGGCuAUGcGGCGGaaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 29068 0.66 0.808603
Target:  5'- gGUAucGGcCCGAUcuGCGCUGCCaaggccggguggUGAGCu -3'
miRNA:   3'- gCAU--CCuGGCUA--UGCGGCGGa-----------ACUCG- -5'
23277 3' -54.5 NC_005259.1 + 25169 0.66 0.804867
Target:  5'- cCGuUGGGuCCGAcccgUACGCCGCCgccgaucccaccgGGGUc -3'
miRNA:   3'- -GC-AUCCuGGCU----AUGCGGCGGaa-----------CUCG- -5'
23277 3' -54.5 NC_005259.1 + 51415 0.66 0.801104
Target:  5'- cCGaGGGGCCGGU-UGagGUCUUGGGCg -3'
miRNA:   3'- -GCaUCCUGGCUAuGCggCGGAACUCG- -5'
23277 3' -54.5 NC_005259.1 + 27843 0.66 0.798264
Target:  5'- gGUAGG-CCGcgaggucgcgcgccGUACGaCCGCCcucUUGGGUg -3'
miRNA:   3'- gCAUCCuGGC--------------UAUGC-GGCGG---AACUCG- -5'
23277 3' -54.5 NC_005259.1 + 59360 0.67 0.781891
Target:  5'- gGUGGGAUCGcucuugcgaAUACGCCGCaccGuGCc -3'
miRNA:   3'- gCAUCCUGGC---------UAUGCGGCGgaaCuCG- -5'
23277 3' -54.5 NC_005259.1 + 26448 0.67 0.779936
Target:  5'- gGgcGGGCCGGUGgGCCGauguggaacGAGCa -3'
miRNA:   3'- gCauCCUGGCUAUgCGGCggaa-----CUCG- -5'
23277 3' -54.5 NC_005259.1 + 52579 0.67 0.772054
Target:  5'- ---cGGACCGGccugaGCGUCGCC--GAGCa -3'
miRNA:   3'- gcauCCUGGCUa----UGCGGCGGaaCUCG- -5'
23277 3' -54.5 NC_005259.1 + 64422 0.67 0.766085
Target:  5'- cCGUgAGGgaucgccgacgagcuGCCGggGCGCUGCCcuugGGGCg -3'
miRNA:   3'- -GCA-UCC---------------UGGCuaUGCGGCGGaa--CUCG- -5'
23277 3' -54.5 NC_005259.1 + 6923 0.67 0.751974
Target:  5'- uCG-AGaACCGc--CGCCGCCUUGAGg -3'
miRNA:   3'- -GCaUCcUGGCuauGCGGCGGAACUCg -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.