miRNA display CGI


Results 1 - 20 of 61 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
27463 3' -65.4 NC_005869.1 + 10605 0.66 0.195613
Target:  5'- cCGUUcUGCGGCagaugaagCCgCCG-GCCGGCg -3'
miRNA:   3'- cGCGA-ACGCCGga------GGgGGCgCGGCCG- -5'
27463 3' -65.4 NC_005869.1 + 6728 0.66 0.195613
Target:  5'- cGCGCcc-UGGCCg--CCCGcCGCUGGCa -3'
miRNA:   3'- -CGCGaacGCCGGaggGGGC-GCGGCCG- -5'
27463 3' -65.4 NC_005869.1 + 9939 0.66 0.195613
Target:  5'- aGCGCcagGuCGGCCaCCa-CGCGCuCGGCc -3'
miRNA:   3'- -CGCGaa-C-GCCGGaGGggGCGCG-GCCG- -5'
27463 3' -65.4 NC_005869.1 + 3184 0.66 0.195613
Target:  5'- cGCGC-UGCGGgC-CCCCCGguccCUGGUg -3'
miRNA:   3'- -CGCGaACGCCgGaGGGGGCgc--GGCCG- -5'
27463 3' -65.4 NC_005869.1 + 17091 0.66 0.192598
Target:  5'- cGCGCggcagcccaaguccUGCaGGCgC-CCCCCGCccgaCCGGCc -3'
miRNA:   3'- -CGCGa-------------ACG-CCG-GaGGGGGCGc---GGCCG- -5'
27463 3' -65.4 NC_005869.1 + 12738 0.66 0.192598
Target:  5'- aGCGCaggaUGCGcuCCUCCUCggcggucagggcauaCGcCGCCGGCa -3'
miRNA:   3'- -CGCGa---ACGCc-GGAGGGG---------------GC-GCGGCCG- -5'
27463 3' -65.4 NC_005869.1 + 9418 0.66 0.19061
Target:  5'- aGCGCUcGauGaCCUCgCCCCGCaugCGGCg -3'
miRNA:   3'- -CGCGAaCgcC-GGAG-GGGGCGcg-GCCG- -5'
27463 3' -65.4 NC_005869.1 + 12797 0.66 0.19061
Target:  5'- gGCGCccGUGGCCgUCgCCCCGUccuGCaucaGGUa -3'
miRNA:   3'- -CGCGaaCGCCGG-AG-GGGGCG---CGg---CCG- -5'
27463 3' -65.4 NC_005869.1 + 10659 0.66 0.185237
Target:  5'- cGCGCUcuCGGUCgCCCUCGCcgucgcugacgcgGCCGcGCg -3'
miRNA:   3'- -CGCGAacGCCGGaGGGGGCG-------------CGGC-CG- -5'
27463 3' -65.4 NC_005869.1 + 15530 0.66 0.185237
Target:  5'- cGCGCgcgGCGgcgccgggcuaccGCCUCCaCCGCGUugaccacauCGGCc -3'
miRNA:   3'- -CGCGaa-CGC-------------CGGAGGgGGCGCG---------GCCG- -5'
27463 3' -65.4 NC_005869.1 + 27440 0.66 0.180941
Target:  5'- gGUGCgaG-GGCUccgCCCCCGgcuaauugcaUGCCGGCg -3'
miRNA:   3'- -CGCGaaCgCCGGa--GGGGGC----------GCGGCCG- -5'
27463 3' -65.4 NC_005869.1 + 16738 0.66 0.178126
Target:  5'- gGgGCacgGCGGCCgccgCCCgcuccagcgccgcggCCGCGCUGaGCu -3'
miRNA:   3'- -CgCGaa-CGCCGGa---GGG---------------GGCGCGGC-CG- -5'
27463 3' -65.4 NC_005869.1 + 11864 0.66 0.176271
Target:  5'- gGCGCUUcGCGaGCCagCCCCUG-GCCaaccgcaucggGGCc -3'
miRNA:   3'- -CGCGAA-CGC-CGGa-GGGGGCgCGG-----------CCG- -5'
27463 3' -65.4 NC_005869.1 + 23005 0.66 0.171708
Target:  5'- cGCGCUgagcgggucgGCGGCgCUgaaCCCCCa-GCUGGUg -3'
miRNA:   3'- -CGCGAa---------CGCCG-GA---GGGGGcgCGGCCG- -5'
27463 3' -65.4 NC_005869.1 + 15792 0.66 0.171708
Target:  5'- cGCGCU--CGGCCauggCCauCUCGCGCCGcGUg -3'
miRNA:   3'- -CGCGAacGCCGGa---GG--GGGCGCGGC-CG- -5'
27463 3' -65.4 NC_005869.1 + 7919 0.66 0.171708
Target:  5'- cGCGCUgcaggugGUGGCCguccagagCCCgCCugcaGCGCUGGa -3'
miRNA:   3'- -CGCGAa------CGCCGGa-------GGG-GG----CGCGGCCg -5'
27463 3' -65.4 NC_005869.1 + 21508 0.66 0.171258
Target:  5'- aGCgGCUUuguauccGCGGCCUUCa-C-CGCCGGCa -3'
miRNA:   3'- -CG-CGAA-------CGCCGGAGGggGcGCGGCCG- -5'
27463 3' -65.4 NC_005869.1 + 9996 0.66 0.167251
Target:  5'- aGCGCgugGUGGCCgaCCUgGCGCUGcuGCg -3'
miRNA:   3'- -CGCGaa-CGCCGGagGGGgCGCGGC--CG- -5'
27463 3' -65.4 NC_005869.1 + 31400 0.66 0.167251
Target:  5'- cUGC-UGCuuCCUCCCCCGCcGCUGcGCc -3'
miRNA:   3'- cGCGaACGccGGAGGGGGCG-CGGC-CG- -5'
27463 3' -65.4 NC_005869.1 + 23205 0.67 0.164627
Target:  5'- gGCGCgguccUGCGGCCUCUucuacucggagggcuCCaagGCGCagcaGGCc -3'
miRNA:   3'- -CGCGa----ACGCCGGAGG---------------GGg--CGCGg---CCG- -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.