miRNA display CGI


Results 1 - 20 of 21 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
28374 3' -65.2 NC_005946.1 + 49584 0.66 0.435292
Target:  5'- cCCGuCCAGGGCCC---CGG-GGGACa -3'
miRNA:   3'- cGGC-GGUCCCGGGagcGUCgCCCUGc -5'
28374 3' -65.2 NC_005946.1 + 87230 0.66 0.435292
Target:  5'- uCCGUCAGaGCCCUUGCuGCGGcaaGCa -3'
miRNA:   3'- cGGCGGUCcCGGGAGCGuCGCCc--UGc -5'
28374 3' -65.2 NC_005946.1 + 61644 0.66 0.426712
Target:  5'- cGCUGCacugGGGGCCUUUuucgGCAGgGaGGACa -3'
miRNA:   3'- -CGGCGg---UCCCGGGAG----CGUCgC-CCUGc -5'
28374 3' -65.2 NC_005946.1 + 72716 0.66 0.421613
Target:  5'- uCCGCguccguggacguggaCGGGGUCCUgUGCGGCGuGACGg -3'
miRNA:   3'- cGGCG---------------GUCCCGGGA-GCGUCGCcCUGC- -5'
28374 3' -65.2 NC_005946.1 + 44560 0.66 0.409026
Target:  5'- cUCGCCAGcagcagaccucacGGCCCUgGCGGUGuGaGGCGu -3'
miRNA:   3'- cGGCGGUC-------------CCGGGAgCGUCGC-C-CUGC- -5'
28374 3' -65.2 NC_005946.1 + 72749 0.66 0.393424
Target:  5'- cCCGCCAGgcuggcguGGUCCggCGCuGCGGGGu- -3'
miRNA:   3'- cGGCGGUC--------CCGGGa-GCGuCGCCCUgc -5'
28374 3' -65.2 NC_005946.1 + 13858 0.67 0.38457
Target:  5'- aGCCGCCA-GGCCCgaCGCGGgucuuacauuugcCGGGGa- -3'
miRNA:   3'- -CGGCGGUcCCGGGa-GCGUC-------------GCCCUgc -5'
28374 3' -65.2 NC_005946.1 + 79257 0.67 0.382974
Target:  5'- gGCCGUacuuggAGaGGaCCCUCGCGGCGGccucugcgacuaugGACGc -3'
miRNA:   3'- -CGGCGg-----UC-CC-GGGAGCGUCGCC--------------CUGC- -5'
28374 3' -65.2 NC_005946.1 + 75748 0.67 0.377424
Target:  5'- cGCUGUcuauCAGGGCCCUCGCAauauCGGcccuGAUGu -3'
miRNA:   3'- -CGGCG----GUCCCGGGAGCGUc---GCC----CUGC- -5'
28374 3' -65.2 NC_005946.1 + 94011 0.67 0.354258
Target:  5'- aUUGCCAGGGCCC--GCA--GGGACGc -3'
miRNA:   3'- cGGCGGUCCCGGGagCGUcgCCCUGC- -5'
28374 3' -65.2 NC_005946.1 + 79033 0.68 0.317925
Target:  5'- aGCCGUgGGGGCCCgccguaaagaCGUAGcCGGcGGCc -3'
miRNA:   3'- -CGGCGgUCCCGGGa---------GCGUC-GCC-CUGc -5'
28374 3' -65.2 NC_005946.1 + 41381 0.68 0.311004
Target:  5'- cCCGUCAGGGUCCgcguacaGCAGCGacGCGa -3'
miRNA:   3'- cGGCGGUCCCGGGag-----CGUCGCccUGC- -5'
28374 3' -65.2 NC_005946.1 + 7986 0.68 0.308268
Target:  5'- aGCgGCCucuGGGCCCcgcacgcguugcaCGCAGaguaCGGGGCGa -3'
miRNA:   3'- -CGgCGGu--CCCGGGa------------GCGUC----GCCCUGC- -5'
28374 3' -65.2 NC_005946.1 + 82907 0.68 0.297506
Target:  5'- gGCCuUCAGGGCCCcggagccagUCGCcaCGGGACa -3'
miRNA:   3'- -CGGcGGUCCCGGG---------AGCGucGCCCUGc -5'
28374 3' -65.2 NC_005946.1 + 68545 0.7 0.248066
Target:  5'- gGCC-CCAGGGCaCUCGCuuuccgucGGCGGGGu- -3'
miRNA:   3'- -CGGcGGUCCCGgGAGCG--------UCGCCCUgc -5'
28374 3' -65.2 NC_005946.1 + 49436 0.7 0.236818
Target:  5'- cCCuCCAGGGCCCUgG-AG-GGGACGg -3'
miRNA:   3'- cGGcGGUCCCGGGAgCgUCgCCCUGC- -5'
28374 3' -65.2 NC_005946.1 + 2950 0.7 0.236267
Target:  5'- gGUCGCCAGGGCcuucucgCCUcugucaaagacCGCAGCGaGGAUc -3'
miRNA:   3'- -CGGCGGUCCCG-------GGA-----------GCGUCGC-CCUGc -5'
28374 3' -65.2 NC_005946.1 + 43681 0.71 0.210561
Target:  5'- uCgGCCAGGGUCC-CGUAGaGGGACc -3'
miRNA:   3'- cGgCGGUCCCGGGaGCGUCgCCCUGc -5'
28374 3' -65.2 NC_005946.1 + 102301 0.73 0.157624
Target:  5'- cGCCGUgCAGGGCCC-CGCAcGCcaGGGCGu -3'
miRNA:   3'- -CGGCG-GUCCCGGGaGCGU-CGc-CCUGC- -5'
28374 3' -65.2 NC_005946.1 + 57907 0.74 0.119984
Target:  5'- gGCUGCCAGGGCCCUguUGGCcGGGGgGg -3'
miRNA:   3'- -CGGCGGUCCCGGGAgcGUCG-CCCUgC- -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.