miRNA display CGI


Results 1 - 20 of 44 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
23464 3' -57.4 NC_005259.1 + 60551 0.75 0.232154
Target:  5'- gCUCGUCGGCAugcCCGGUgccGACGGUCa-- -3'
miRNA:   3'- gGAGCAGCCGU---GGCCG---CUGCUAGagu -5'
23464 3' -57.4 NC_005259.1 + 67042 0.75 0.243996
Target:  5'- cCCUCGaCGGCGagcacCCGuGCGcCGAUCUCAa -3'
miRNA:   3'- -GGAGCaGCCGU-----GGC-CGCuGCUAGAGU- -5'
23464 3' -57.4 NC_005259.1 + 67792 0.74 0.262694
Target:  5'- aCCUUGUUGGCACCGcguGCGAgcuugagccCGAUCUUg -3'
miRNA:   3'- -GGAGCAGCCGUGGC---CGCU---------GCUAGAGu -5'
23464 3' -57.4 NC_005259.1 + 58735 0.73 0.303557
Target:  5'- -gUCGUUGGCACCGGCaccGGCGAagUUCGg -3'
miRNA:   3'- ggAGCAGCCGUGGCCG---CUGCUa-GAGU- -5'
23464 3' -57.4 NC_005259.1 + 58161 0.72 0.349135
Target:  5'- aCUCGUCGGCGCaCGGgaucuCGACGcacGUCUUg -3'
miRNA:   3'- gGAGCAGCCGUG-GCC-----GCUGC---UAGAGu -5'
23464 3' -57.4 NC_005259.1 + 34868 0.72 0.35719
Target:  5'- uCCUCGUCGGUGCCGGacCGGgGugcCUCGg -3'
miRNA:   3'- -GGAGCAGCCGUGGCC--GCUgCua-GAGU- -5'
23464 3' -57.4 NC_005259.1 + 34050 0.71 0.408198
Target:  5'- uUCUUGUUGGCAUuguccgaccaCGGCGGCGGUgUCc -3'
miRNA:   3'- -GGAGCAGCCGUG----------GCCGCUGCUAgAGu -5'
23464 3' -57.4 NC_005259.1 + 61562 0.71 0.417132
Target:  5'- gCCgacaCGGCACCGGCaguuGAgGAUCUCAu -3'
miRNA:   3'- -GGagcaGCCGUGGCCG----CUgCUAGAGU- -5'
23464 3' -57.4 NC_005259.1 + 27376 0.71 0.426184
Target:  5'- gCC-CGgcaCGGUgACCGGCGGCGGUgUCGg -3'
miRNA:   3'- -GGaGCa--GCCG-UGGCCGCUGCUAgAGU- -5'
23464 3' -57.4 NC_005259.1 + 8316 0.71 0.435352
Target:  5'- gCCUUGUCGGagcuGCCGaCGGCGAUCa-- -3'
miRNA:   3'- -GGAGCAGCCg---UGGCcGCUGCUAGagu -5'
23464 3' -57.4 NC_005259.1 + 43184 0.71 0.435352
Target:  5'- ---aGUCGGUACCgaccucGGCGGCGAUgUCGa -3'
miRNA:   3'- ggagCAGCCGUGG------CCGCUGCUAgAGU- -5'
23464 3' -57.4 NC_005259.1 + 68286 0.7 0.467349
Target:  5'- uCCUCGccccauacaucgggaUCgGGCGcguCCGGCGACGGgaUCUCGa -3'
miRNA:   3'- -GGAGC---------------AG-CCGU---GGCCGCUGCU--AGAGU- -5'
23464 3' -57.4 NC_005259.1 + 51674 0.7 0.473122
Target:  5'- --gCGUCgGGCACgGGCGcgcgAUGGUCUCAu -3'
miRNA:   3'- ggaGCAG-CCGUGgCCGC----UGCUAGAGU- -5'
23464 3' -57.4 NC_005259.1 + 61728 0.7 0.473122
Target:  5'- aCCUUGUCGaGCAggugugcguCCGGCGA-GAUCUg- -3'
miRNA:   3'- -GGAGCAGC-CGU---------GGCCGCUgCUAGAgu -5'
23464 3' -57.4 NC_005259.1 + 21980 0.7 0.492615
Target:  5'- -gUCGUucuccccacCGGCACCGGCaagucGACGGUCaUCGg -3'
miRNA:   3'- ggAGCA---------GCCGUGGCCG-----CUGCUAG-AGU- -5'
23464 3' -57.4 NC_005259.1 + 2239 0.69 0.5025
Target:  5'- aUUUGUCGGCGacagccgguaCGGCGACGAgUUCGa -3'
miRNA:   3'- gGAGCAGCCGUg---------GCCGCUGCUaGAGU- -5'
23464 3' -57.4 NC_005259.1 + 34560 0.69 0.5025
Target:  5'- --cCGUCGGgGCCGaCGGCGAgguUCUCGg -3'
miRNA:   3'- ggaGCAGCCgUGGCcGCUGCU---AGAGU- -5'
23464 3' -57.4 NC_005259.1 + 10320 0.69 0.5025
Target:  5'- -gUCGUCaucgGGC-UCGGCGACGggCUCGg -3'
miRNA:   3'- ggAGCAG----CCGuGGCCGCUGCuaGAGU- -5'
23464 3' -57.4 NC_005259.1 + 20486 0.69 0.522521
Target:  5'- aCCUCGacaccgccCGGCAgcucaUCGGCGACGGUgUCc -3'
miRNA:   3'- -GGAGCa-------GCCGU-----GGCCGCUGCUAgAGu -5'
23464 3' -57.4 NC_005259.1 + 63675 0.69 0.532647
Target:  5'- aCCUCG--GGCACCGGCGcgccgGgGAUCUg- -3'
miRNA:   3'- -GGAGCagCCGUGGCCGC-----UgCUAGAgu -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.