miRNA display CGI


Results 1 - 20 of 28 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
7270 3' -57.6 NC_001900.1 + 4047 1.08 0.000758
Target:  5'- uCACGAUCGACGGCGUGACCGCCUCGAu -3'
miRNA:   3'- -GUGCUAGCUGCCGCACUGGCGGAGCU- -5'
7270 3' -57.6 NC_001900.1 + 13774 0.73 0.239583
Target:  5'- uCGCGGcgUCGACuuggucaGGUGUGACCGCCagGAg -3'
miRNA:   3'- -GUGCU--AGCUG-------CCGCACUGGCGGagCU- -5'
7270 3' -57.6 NC_001900.1 + 2369 0.71 0.308067
Target:  5'- -uCGAUCuGGCuGGCGUGuuCCGCCUCa- -3'
miRNA:   3'- guGCUAG-CUG-CCGCACu-GGCGGAGcu -5'
7270 3' -57.6 NC_001900.1 + 5770 0.71 0.308067
Target:  5'- -uUGAUcCGGC-GCGUGACCGUUUCGAg -3'
miRNA:   3'- guGCUA-GCUGcCGCACUGGCGGAGCU- -5'
7270 3' -57.6 NC_001900.1 + 11780 0.71 0.339054
Target:  5'- aGCGAguUCaGCGGUGUGagcgucguucGCCGCCUUGAc -3'
miRNA:   3'- gUGCU--AGcUGCCGCAC----------UGGCGGAGCU- -5'
7270 3' -57.6 NC_001900.1 + 15203 0.7 0.355375
Target:  5'- aGCGugccUCGGCuGGUGUGGCCGaCgCUCGAc -3'
miRNA:   3'- gUGCu---AGCUG-CCGCACUGGC-G-GAGCU- -5'
7270 3' -57.6 NC_001900.1 + 22598 0.7 0.36374
Target:  5'- --aGAUCGGCGGCgGUGAUuucaGCUUCGGc -3'
miRNA:   3'- gugCUAGCUGCCG-CACUGg---CGGAGCU- -5'
7270 3' -57.6 NC_001900.1 + 5970 0.69 0.397648
Target:  5'- aACGG-CGACGGCauggGGCCGCCcgcuacgUCGAg -3'
miRNA:   3'- gUGCUaGCUGCCGca--CUGGCGG-------AGCU- -5'
7270 3' -57.6 NC_001900.1 + 33128 0.69 0.407572
Target:  5'- gGCGGUagCGGCGGCgGUGGCCagcagcaccaGUCUCGGg -3'
miRNA:   3'- gUGCUA--GCUGCCG-CACUGG----------CGGAGCU- -5'
7270 3' -57.6 NC_001900.1 + 42951 0.69 0.426007
Target:  5'- gCACGu----UGGUGUGACCGCCUCc- -3'
miRNA:   3'- -GUGCuagcuGCCGCACUGGCGGAGcu -5'
7270 3' -57.6 NC_001900.1 + 37232 0.68 0.464312
Target:  5'- aACGGcCGGCGGuCGUGGuuGCCUuCGu -3'
miRNA:   3'- gUGCUaGCUGCC-GCACUggCGGA-GCu -5'
7270 3' -57.6 NC_001900.1 + 34840 0.67 0.524906
Target:  5'- -uCGAggaCGGCGGUGcgcUGACCGgUCUCGAu -3'
miRNA:   3'- guGCUa--GCUGCCGC---ACUGGC-GGAGCU- -5'
7270 3' -57.6 NC_001900.1 + 29117 0.67 0.524906
Target:  5'- gCACGAUCGAgggagacgagauCGGCGUcuacACCGCCgaugucccCGAa -3'
miRNA:   3'- -GUGCUAGCU------------GCCGCAc---UGGCGGa-------GCU- -5'
7270 3' -57.6 NC_001900.1 + 7144 0.67 0.535309
Target:  5'- uCACcGUCGugGGCGUagucGCgGaCCUCGAa -3'
miRNA:   3'- -GUGcUAGCugCCGCAc---UGgC-GGAGCU- -5'
7270 3' -57.6 NC_001900.1 + 29663 0.67 0.535309
Target:  5'- -cCGAUgGGcCGGCGgcugccggugGACCGCuCUCGGa -3'
miRNA:   3'- guGCUAgCU-GCCGCa---------CUGGCG-GAGCU- -5'
7270 3' -57.6 NC_001900.1 + 17125 0.67 0.535309
Target:  5'- -uCGAggaGACGGCGgucuUGGCCGCUUCc- -3'
miRNA:   3'- guGCUag-CUGCCGC----ACUGGCGGAGcu -5'
7270 3' -57.6 NC_001900.1 + 12268 0.67 0.555267
Target:  5'- aCugGGUCGGCGaCGUGAgUGCCcaguggaUCGGu -3'
miRNA:   3'- -GugCUAGCUGCcGCACUgGCGG-------AGCU- -5'
7270 3' -57.6 NC_001900.1 + 44927 0.67 0.556324
Target:  5'- -gUGGgcUCGACGGUGgaGACCGCgUUGAc -3'
miRNA:   3'- guGCU--AGCUGCCGCa-CUGGCGgAGCU- -5'
7270 3' -57.6 NC_001900.1 + 26903 0.67 0.556324
Target:  5'- uCGCcGUCGGCGGUcUGGCCuucaGCCUCa- -3'
miRNA:   3'- -GUGcUAGCUGCCGcACUGG----CGGAGcu -5'
7270 3' -57.6 NC_001900.1 + 36643 0.66 0.566921
Target:  5'- gACGGUCGagguuGCGG-GUGAUCuCCUCGGc -3'
miRNA:   3'- gUGCUAGC-----UGCCgCACUGGcGGAGCU- -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.