miRNA display CGI


Results 1 - 20 of 33 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
23308 5' -57.4 NC_005259.1 + 49431 0.66 0.668973
Target:  5'- gAAACCGGcgaGCGCCGccuuggUCGGCAgcCGGa- -3'
miRNA:   3'- gUUUGGCC---CGUGGC------AGCCGUa-GCCau -5'
23308 5' -57.4 NC_005259.1 + 24039 0.66 0.658291
Target:  5'- gGAACCGccGCAacgUCGUCGGCG-CGGUGc -3'
miRNA:   3'- gUUUGGCc-CGU---GGCAGCCGUaGCCAU- -5'
23308 5' -57.4 NC_005259.1 + 13436 0.66 0.658291
Target:  5'- gGGGCCGcgcuaGGCgugACCGUCGGCG-CGGc- -3'
miRNA:   3'- gUUUGGC-----CCG---UGGCAGCCGUaGCCau -5'
23308 5' -57.4 NC_005259.1 + 46416 0.66 0.658291
Target:  5'- gAAACCGGGCugugcacCCGUgacgauggUGGCAagcugcugcUCGGUGa -3'
miRNA:   3'- gUUUGGCCCGu------GGCA--------GCCGU---------AGCCAU- -5'
23308 5' -57.4 NC_005259.1 + 68787 0.66 0.636868
Target:  5'- gCAggUCGuaCGCCGgggCGGUGUCGGUGc -3'
miRNA:   3'- -GUuuGGCccGUGGCa--GCCGUAGCCAU- -5'
23308 5' -57.4 NC_005259.1 + 3121 0.66 0.636868
Target:  5'- ----gCGcGGCACCGUgGGCAgCGGa- -3'
miRNA:   3'- guuugGC-CCGUGGCAgCCGUaGCCau -5'
23308 5' -57.4 NC_005259.1 + 47887 0.66 0.626145
Target:  5'- -uGGCCGGGuCAgCGUCGGC-UCGu-- -3'
miRNA:   3'- guUUGGCCC-GUgGCAGCCGuAGCcau -5'
23308 5' -57.4 NC_005259.1 + 68303 0.66 0.626145
Target:  5'- gGGAUCGGGCG-CGUCcGGCGaCGGg- -3'
miRNA:   3'- gUUUGGCCCGUgGCAG-CCGUaGCCau -5'
23308 5' -57.4 NC_005259.1 + 6433 0.67 0.615427
Target:  5'- --cGCCGaugucGGCACCGUCGcGCugAUCGGc- -3'
miRNA:   3'- guuUGGC-----CCGUGGCAGC-CG--UAGCCau -5'
23308 5' -57.4 NC_005259.1 + 50660 0.67 0.604724
Target:  5'- gGGGCCauaGGGCACCa--GcGCGUCGGUGc -3'
miRNA:   3'- gUUUGG---CCCGUGGcagC-CGUAGCCAU- -5'
23308 5' -57.4 NC_005259.1 + 4994 0.67 0.604724
Target:  5'- -uGGCCGGGCACUa-CGGCAa-GGUGg -3'
miRNA:   3'- guUUGGCCCGUGGcaGCCGUagCCAU- -5'
23308 5' -57.4 NC_005259.1 + 10927 0.67 0.587648
Target:  5'- aCAAGCUcGGCGaacucggugucgaccUCGUCGGUGUCGGUc -3'
miRNA:   3'- -GUUUGGcCCGU---------------GGCAGCCGUAGCCAu -5'
23308 5' -57.4 NC_005259.1 + 36139 0.67 0.583392
Target:  5'- --cGCCGGGCuguCCGUCGcCAUggccaCGGUGa -3'
miRNA:   3'- guuUGGCCCGu--GGCAGCcGUA-----GCCAU- -5'
23308 5' -57.4 NC_005259.1 + 53917 0.67 0.562213
Target:  5'- gAAACCgacGGGCAgaUCGUUGGCGUCGa-- -3'
miRNA:   3'- gUUUGG---CCCGU--GGCAGCCGUAGCcau -5'
23308 5' -57.4 NC_005259.1 + 61914 0.67 0.562213
Target:  5'- --cGCCGGuCGUCGUCGGCAgcUCGGUc -3'
miRNA:   3'- guuUGGCCcGUGGCAGCCGU--AGCCAu -5'
23308 5' -57.4 NC_005259.1 + 54225 0.68 0.541248
Target:  5'- --uACCGGGCAUaggGUCGGUccuccuaaGUCGGg- -3'
miRNA:   3'- guuUGGCCCGUGg--CAGCCG--------UAGCCau -5'
23308 5' -57.4 NC_005259.1 + 27387 0.68 0.541248
Target:  5'- -uGACCGgcGGCGgUGUCGGCAgcggcggcagcUCGGUGc -3'
miRNA:   3'- guUUGGC--CCGUgGCAGCCGU-----------AGCCAU- -5'
23308 5' -57.4 NC_005259.1 + 9706 0.68 0.541248
Target:  5'- --cACUGGGCACCGUCcucgGGC--CGGUc -3'
miRNA:   3'- guuUGGCCCGUGGCAG----CCGuaGCCAu -5'
23308 5' -57.4 NC_005259.1 + 57310 0.68 0.510318
Target:  5'- --cAUCGaGCACCGgCGGUGUCGGUGu -3'
miRNA:   3'- guuUGGCcCGUGGCaGCCGUAGCCAU- -5'
23308 5' -57.4 NC_005259.1 + 40136 0.68 0.500171
Target:  5'- ----gCGGGCgagcucGCCGUCGGuUGUCGGUGc -3'
miRNA:   3'- guuugGCCCG------UGGCAGCC-GUAGCCAU- -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.