miRNA display CGI


Results 1 - 20 of 24 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
11979 5' -51.3 NC_003278.1 + 19286 0.66 0.793086
Target:  5'- cCGGGCgcucaagGCAACucgCGAGCGCCUGa-- -3'
miRNA:   3'- -GCUUGa------UGUUGca-GUUCGCGGACcag -5'
11979 5' -51.3 NC_003278.1 + 29351 0.66 0.782625
Target:  5'- uGAGCUGCAGCuUCAuGa-UCUGGUCa -3'
miRNA:   3'- gCUUGAUGUUGcAGUuCgcGGACCAG- -5'
11979 5' -51.3 NC_003278.1 + 10571 0.66 0.782625
Target:  5'- gCGAACgcgcgaggGCAGCa-CGAGgGCCUGGcUCg -3'
miRNA:   3'- -GCUUGa-------UGUUGcaGUUCgCGGACC-AG- -5'
11979 5' -51.3 NC_003278.1 + 17502 0.67 0.739148
Target:  5'- cCGGACUuccUGACGUgGAGCaCCgUGGUCa -3'
miRNA:   3'- -GCUUGAu--GUUGCAgUUCGcGG-ACCAG- -5'
11979 5' -51.3 NC_003278.1 + 13816 0.67 0.739148
Target:  5'- gGAAcCUugAGCGcCcuGCGCCgcgUGGUCg -3'
miRNA:   3'- gCUU-GAugUUGCaGuuCGCGG---ACCAG- -5'
11979 5' -51.3 NC_003278.1 + 13400 0.67 0.738033
Target:  5'- aCGGcCUACGuccaucaGCGUCGA-CGCCUGGg- -3'
miRNA:   3'- -GCUuGAUGU-------UGCAGUUcGCGGACCag -5'
11979 5' -51.3 NC_003278.1 + 32617 0.67 0.72794
Target:  5'- uCGGGCgccaucauCGGCGUCAAGuCGCCcGGcCa -3'
miRNA:   3'- -GCUUGau------GUUGCAGUUC-GCGGaCCaG- -5'
11979 5' -51.3 NC_003278.1 + 7166 0.67 0.72794
Target:  5'- -cGACUcCAGCGUCGAuccagcGCGCCUcgaaguugcGGUCa -3'
miRNA:   3'- gcUUGAuGUUGCAGUU------CGCGGA---------CCAG- -5'
11979 5' -51.3 NC_003278.1 + 21500 0.68 0.716623
Target:  5'- gCGuGAUUGC-ACGUCucGGCcaagGCCUGGUCa -3'
miRNA:   3'- -GC-UUGAUGuUGCAGu-UCG----CGGACCAG- -5'
11979 5' -51.3 NC_003278.1 + 12989 0.68 0.693721
Target:  5'- gCGAGCUGguCGAgGUC-AGCGcCCUGGg- -3'
miRNA:   3'- -GCUUGAU--GUUgCAGuUCGC-GGACCag -5'
11979 5' -51.3 NC_003278.1 + 10248 0.69 0.635517
Target:  5'- cCGAGCguguCGuCGUCAAGCGCCgcgaGGa- -3'
miRNA:   3'- -GCUUGau--GUuGCAGUUCGCGGa---CCag -5'
11979 5' -51.3 NC_003278.1 + 4432 0.69 0.612124
Target:  5'- aCGGACggccGCAACaUCGAGCGCgaCUGGaUCg -3'
miRNA:   3'- -GCUUGa---UGUUGcAGUUCGCG--GACC-AG- -5'
11979 5' -51.3 NC_003278.1 + 9300 0.69 0.600451
Target:  5'- uCGAGCcuuCAGCGcCuuguguAGCGCCgGGUCg -3'
miRNA:   3'- -GCUUGau-GUUGCaGu-----UCGCGGaCCAG- -5'
11979 5' -51.3 NC_003278.1 + 9965 0.7 0.565658
Target:  5'- gGAACUcaggaACAACG-CGAcCGCCUGGUg -3'
miRNA:   3'- gCUUGA-----UGUUGCaGUUcGCGGACCAg -5'
11979 5' -51.3 NC_003278.1 + 29530 0.7 0.547309
Target:  5'- uGGACUGgcuguggaccugcuuCGGCGcCAAGgGCCUGGUg -3'
miRNA:   3'- gCUUGAU---------------GUUGCaGUUCgCGGACCAg -5'
11979 5' -51.3 NC_003278.1 + 22447 0.7 0.54275
Target:  5'- uCGcGCUGCAACugGUCGacGGCGC-UGGUCa -3'
miRNA:   3'- -GCuUGAUGUUG--CAGU--UCGCGgACCAG- -5'
11979 5' -51.3 NC_003278.1 + 8352 0.71 0.53141
Target:  5'- --cGCUGCcGCG-Cu-GCGCCUGGUCu -3'
miRNA:   3'- gcuUGAUGuUGCaGuuCGCGGACCAG- -5'
11979 5' -51.3 NC_003278.1 + 8451 0.72 0.464383
Target:  5'- aCGAgacGCUGCGGCGgaagCGGGCGCCgcagcgcUGGUa -3'
miRNA:   3'- -GCU---UGAUGUUGCa---GUUCGCGG-------ACCAg -5'
11979 5' -51.3 NC_003278.1 + 29532 0.73 0.403996
Target:  5'- gCGAuCUGCAGCuugaUCGAGCGCUgcagGGUCu -3'
miRNA:   3'- -GCUuGAUGUUGc---AGUUCGCGGa---CCAG- -5'
11979 5' -51.3 NC_003278.1 + 31725 0.74 0.375253
Target:  5'- cCGGcCUccGCGACuUCGAGCGCCUGGcCg -3'
miRNA:   3'- -GCUuGA--UGUUGcAGUUCGCGGACCaG- -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.