miRNA display CGI


Results 1 - 20 of 35 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
19027 3' -58.1 NC_004684.1 + 30830 0.66 0.657589
Target:  5'- cGGcaUGagCgGGUAGGUGCCGGaaUGCg -3'
miRNA:   3'- cCC--ACagGgCCAUCCACGGCCacAUG- -5'
19027 3' -58.1 NC_004684.1 + 11364 0.66 0.647016
Target:  5'- -----aCCCGcG-AGGUGCCGGUGgugGCg -3'
miRNA:   3'- cccacaGGGC-CaUCCACGGCCACa--UG- -5'
19027 3' -58.1 NC_004684.1 + 26430 0.66 0.63643
Target:  5'- cGGG-GUUcgccgCCGGUGGc--CCGGUGUACg -3'
miRNA:   3'- -CCCaCAG-----GGCCAUCcacGGCCACAUG- -5'
19027 3' -58.1 NC_004684.1 + 7305 0.66 0.636429
Target:  5'- gGGGUGgCCCGGUgaaggcccgcacGGGccGCCGGgccGCg -3'
miRNA:   3'- -CCCACaGGGCCA------------UCCa-CGGCCacaUG- -5'
19027 3' -58.1 NC_004684.1 + 14100 0.66 0.634311
Target:  5'- cGGGUGguguggcucagcCCCGGUGGGUgggaGCCGaUG-ACa -3'
miRNA:   3'- -CCCACa-----------GGGCCAUCCA----CGGCcACaUG- -5'
19027 3' -58.1 NC_004684.1 + 29515 0.66 0.625839
Target:  5'- uGGUGcagaaaggCCugcgcugguCGGUGGuUGCCGGUGUACc -3'
miRNA:   3'- cCCACa-------GG---------GCCAUCcACGGCCACAUG- -5'
19027 3' -58.1 NC_004684.1 + 37567 0.66 0.604684
Target:  5'- cGGUGUaCCGGgagcuggAGGUGCCcGGcaucgGUACc -3'
miRNA:   3'- cCCACAgGGCCa------UCCACGG-CCa----CAUG- -5'
19027 3' -58.1 NC_004684.1 + 65757 0.66 0.604683
Target:  5'- uGGGcgccgGUaCCCGGUugcgccggugcAGGUGCCGGaacUGcUGCu -3'
miRNA:   3'- -CCCa----CA-GGGCCA-----------UCCACGGCC---AC-AUG- -5'
19027 3' -58.1 NC_004684.1 + 9544 0.67 0.594134
Target:  5'- uGGUG-CgCCGGUuGGaGCCGGUGcGCc -3'
miRNA:   3'- cCCACaG-GGCCAuCCaCGGCCACaUG- -5'
19027 3' -58.1 NC_004684.1 + 61035 0.67 0.583615
Target:  5'- cGGGUgcGUCCCGccGUacAGGUucaacaauacggGCCGGUGgcgGCa -3'
miRNA:   3'- -CCCA--CAGGGC--CA--UCCA------------CGGCCACa--UG- -5'
19027 3' -58.1 NC_004684.1 + 48122 0.67 0.583615
Target:  5'- cGGGUccaccGUCCCGGUcGGc-CCGGUGa-- -3'
miRNA:   3'- -CCCA-----CAGGGCCAuCCacGGCCACaug -5'
19027 3' -58.1 NC_004684.1 + 52869 0.67 0.583615
Target:  5'- uGGUG-CaCCGGUAcaUGCCGGUGgcaGCa -3'
miRNA:   3'- cCCACaG-GGCCAUccACGGCCACa--UG- -5'
19027 3' -58.1 NC_004684.1 + 58761 0.67 0.583614
Target:  5'- gGGGUG-CCgaggauCGGc-GGUGCCGGUGcACc -3'
miRNA:   3'- -CCCACaGG------GCCauCCACGGCCACaUG- -5'
19027 3' -58.1 NC_004684.1 + 43595 0.67 0.579417
Target:  5'- uGGGUGUUgCGGUugcGGUGaacagcccggccaCGGUGUGg -3'
miRNA:   3'- -CCCACAGgGCCAu--CCACg------------GCCACAUg -5'
19027 3' -58.1 NC_004684.1 + 62786 0.67 0.573132
Target:  5'- uGGUGccugCCCGGcgGGGuUGCCGGgcagGCg -3'
miRNA:   3'- cCCACa---GGGCCa-UCC-ACGGCCaca-UG- -5'
19027 3' -58.1 NC_004684.1 + 57821 0.67 0.573132
Target:  5'- cGGccugGUCCCGGc-GGUGCUGGccgccgGUACc -3'
miRNA:   3'- cCCa---CAGGGCCauCCACGGCCa-----CAUG- -5'
19027 3' -58.1 NC_004684.1 + 35050 0.67 0.572086
Target:  5'- uGGGUGUCCaGcGUGaucgucgccgaauGGUcGuuGGUGUGCa -3'
miRNA:   3'- -CCCACAGGgC-CAU-------------CCA-CggCCACAUG- -5'
19027 3' -58.1 NC_004684.1 + 58799 0.67 0.562695
Target:  5'- aGGuUGUCCCGGcggUAGGUGCCGc----- -3'
miRNA:   3'- cCC-ACAGGGCC---AUCCACGGCcacaug -5'
19027 3' -58.1 NC_004684.1 + 36586 0.67 0.562694
Target:  5'- uGGUG-CCCGacggcacgguGUAGGUGCCGGa---- -3'
miRNA:   3'- cCCACaGGGC----------CAUCCACGGCCacaug -5'
19027 3' -58.1 NC_004684.1 + 51478 0.67 0.541982
Target:  5'- cGGUG-CCgGGUAGGccucUGCCGGg--ACg -3'
miRNA:   3'- cCCACaGGgCCAUCC----ACGGCCacaUG- -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.