miRNA display CGI


Results 1 - 19 of 19 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
26376 3' -56 NC_005345.2 + 43803 0.66 0.664272
Target:  5'- -cGCGAGuGUCCUUCUCGGCGUccgGGuCGa -3'
miRNA:   3'- cuUGCUC-UAGGGGGAGCUGCGa--UC-GC- -5'
26376 3' -56 NC_005345.2 + 11876 0.66 0.631302
Target:  5'- -cACGAcGUgCCCCUCGACGaCgacGCGa -3'
miRNA:   3'- cuUGCUcUAgGGGGAGCUGC-Gau-CGC- -5'
26376 3' -56 NC_005345.2 + 19180 0.66 0.631302
Target:  5'- cGACGAG---CCCCUCGACGacgAGCc -3'
miRNA:   3'- cUUGCUCuagGGGGAGCUGCga-UCGc -5'
26376 3' -56 NC_005345.2 + 29435 0.66 0.631302
Target:  5'- -uGCGGGcGUCgUCCUCGGCGUcgaGGCGg -3'
miRNA:   3'- cuUGCUC-UAGgGGGAGCUGCGa--UCGC- -5'
26376 3' -56 NC_005345.2 + 37965 0.66 0.620301
Target:  5'- cGGAuCGGGAUCCgguggCUCGACGC-GGCGa -3'
miRNA:   3'- -CUU-GCUCUAGGgg---GAGCUGCGaUCGC- -5'
26376 3' -56 NC_005345.2 + 9974 0.67 0.598337
Target:  5'- cGGGCuGGGGUCCgCCUCGAccaCGUgaaAGCGa -3'
miRNA:   3'- -CUUG-CUCUAGGgGGAGCU---GCGa--UCGC- -5'
26376 3' -56 NC_005345.2 + 7492 0.67 0.598337
Target:  5'- --cCGAGAagCCCCUC-ACGCUggAGUGg -3'
miRNA:   3'- cuuGCUCUagGGGGAGcUGCGA--UCGC- -5'
26376 3' -56 NC_005345.2 + 4345 0.67 0.576489
Target:  5'- cGAGcCGGGGUCCUgCCUCGG-GCgGGCGg -3'
miRNA:   3'- -CUU-GCUCUAGGG-GGAGCUgCGaUCGC- -5'
26376 3' -56 NC_005345.2 + 9736 0.68 0.512286
Target:  5'- cGAGCG-GGUCggCCUCGAUGCU-GCGg -3'
miRNA:   3'- -CUUGCuCUAGggGGAGCUGCGAuCGC- -5'
26376 3' -56 NC_005345.2 + 16602 0.69 0.481285
Target:  5'- uGGCGuGGcccgaCCCCCUCGGCGUcGGCa -3'
miRNA:   3'- cUUGCuCUa----GGGGGAGCUGCGaUCGc -5'
26376 3' -56 NC_005345.2 + 16567 0.69 0.471154
Target:  5'- uGGGCGcGGGUCUCCUUCGAgCGUgcGCGg -3'
miRNA:   3'- -CUUGC-UCUAGGGGGAGCU-GCGauCGC- -5'
26376 3' -56 NC_005345.2 + 17858 0.69 0.471154
Target:  5'- cGGCGAcAUCCCCC-CGugGCgcGCa -3'
miRNA:   3'- cUUGCUcUAGGGGGaGCugCGauCGc -5'
26376 3' -56 NC_005345.2 + 13659 0.7 0.422221
Target:  5'- cGACGAGcagcgcgCCgCCCUCGACGCcgucgGGCa -3'
miRNA:   3'- cUUGCUCua-----GG-GGGAGCUGCGa----UCGc -5'
26376 3' -56 NC_005345.2 + 3388 0.7 0.394368
Target:  5'- cGGCGAGGuccggcgcggcaUCCCCCUCGACGac-GUGu -3'
miRNA:   3'- cUUGCUCU------------AGGGGGAGCUGCgauCGC- -5'
26376 3' -56 NC_005345.2 + 36010 0.71 0.367732
Target:  5'- cGGCGucagCCCCCUUGACGCacGGCGg -3'
miRNA:   3'- cUUGCucuaGGGGGAGCUGCGa-UCGC- -5'
26376 3' -56 NC_005345.2 + 15272 0.71 0.367732
Target:  5'- cGAGCGGcGUCCCCCacgUCGACGCcgaacgccucGGCGa -3'
miRNA:   3'- -CUUGCUcUAGGGGG---AGCUGCGa---------UCGC- -5'
26376 3' -56 NC_005345.2 + 30942 0.71 0.342359
Target:  5'- cGAACGcGGcgCCCCaCUCGGCGCgcGCc -3'
miRNA:   3'- -CUUGC-UCuaGGGG-GAGCUGCGauCGc -5'
26376 3' -56 NC_005345.2 + 1071 0.72 0.310533
Target:  5'- aGGACGgaAGAgagUCCCCUCGACgGCgacgAGCGg -3'
miRNA:   3'- -CUUGC--UCUa--GGGGGAGCUG-CGa---UCGC- -5'
26376 3' -56 NC_005345.2 + 23028 1.09 0.000738
Target:  5'- cGAACGAGAUCCCCCUCGACGCUAGCGa -3'
miRNA:   3'- -CUUGCUCUAGGGGGAGCUGCGAUCGC- -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.