miRNA display CGI


Results 1 - 16 of 16 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
9210 5' -53.7 NC_002512.2 + 135688 0.66 0.987552
Target:  5'- gGGCUGCUGGgGcUCuucgGCCuGUACa -3'
miRNA:   3'- -CCGACGACUgCuAGcacaCGGuCAUG- -5'
9210 5' -53.7 NC_002512.2 + 155995 0.66 0.987094
Target:  5'- cGC-GCUGAgCGAgugccuguacuacuUCGUGUucacguccugggGCCAGUGCa -3'
miRNA:   3'- cCGaCGACU-GCU--------------AGCACA------------CGGUCAUG- -5'
9210 5' -53.7 NC_002512.2 + 146622 0.66 0.984246
Target:  5'- uGCUGCcGACGAUCc---GCCAGcUGCu -3'
miRNA:   3'- cCGACGaCUGCUAGcacaCGGUC-AUG- -5'
9210 5' -53.7 NC_002512.2 + 32846 0.66 0.980312
Target:  5'- aGGCUGCaggaggUGACGGUgcCGUggGUGCCgcGGUAg -3'
miRNA:   3'- -CCGACG------ACUGCUA--GCA--CACGG--UCAUg -5'
9210 5' -53.7 NC_002512.2 + 228826 0.67 0.973101
Target:  5'- aGCaGCUGACGuUCGUGUGCgGa--- -3'
miRNA:   3'- cCGaCGACUGCuAGCACACGgUcaug -5'
9210 5' -53.7 NC_002512.2 + 191941 0.68 0.953295
Target:  5'- -aCUGCccggGAuagggucucCGAcCGUGUGCCGGUACg -3'
miRNA:   3'- ccGACGa---CU---------GCUaGCACACGGUCAUG- -5'
9210 5' -53.7 NC_002512.2 + 31252 0.69 0.935667
Target:  5'- gGGC-GCUGAUGGacgcggacgugUaCGUGUGCCcggAGUACg -3'
miRNA:   3'- -CCGaCGACUGCU-----------A-GCACACGG---UCAUG- -5'
9210 5' -53.7 NC_002512.2 + 117051 0.69 0.930679
Target:  5'- gGGCUGCUGcCGuUCGU--GCCGGaGCa -3'
miRNA:   3'- -CCGACGACuGCuAGCAcaCGGUCaUG- -5'
9210 5' -53.7 NC_002512.2 + 4426 0.69 0.930679
Target:  5'- cGGCUGCUGGuagacCGG-CGggGUGCCGG-GCg -3'
miRNA:   3'- -CCGACGACU-----GCUaGCa-CACGGUCaUG- -5'
9210 5' -53.7 NC_002512.2 + 35469 0.69 0.919437
Target:  5'- uGGCUGgcgacguguaUGACGGUCGUgccguggcggagcGUGCCAG-ACa -3'
miRNA:   3'- -CCGACg---------ACUGCUAGCA-------------CACGGUCaUG- -5'
9210 5' -53.7 NC_002512.2 + 59748 0.7 0.908375
Target:  5'- uGCUGCUgGACGAggagaCG-GUGCC-GUACa -3'
miRNA:   3'- cCGACGA-CUGCUa----GCaCACGGuCAUG- -5'
9210 5' -53.7 NC_002512.2 + 182360 0.7 0.882375
Target:  5'- cGGCUGCUGGaucUCGUGgaUGUCGGUGg -3'
miRNA:   3'- -CCGACGACUgcuAGCAC--ACGGUCAUg -5'
9210 5' -53.7 NC_002512.2 + 145212 0.71 0.875319
Target:  5'- gGGCUGCggGACGAggaccaGUGCCGGcGCg -3'
miRNA:   3'- -CCGACGa-CUGCUagca--CACGGUCaUG- -5'
9210 5' -53.7 NC_002512.2 + 202041 0.72 0.82869
Target:  5'- cGGUccgGCUcGCGGUCGUGUcGCgAGUGCu -3'
miRNA:   3'- -CCGa--CGAcUGCUAGCACA-CGgUCAUG- -5'
9210 5' -53.7 NC_002512.2 + 73795 0.73 0.784949
Target:  5'- cGGCUGUcuUGACGGUUGgUGUcGCCAGg-- -3'
miRNA:   3'- -CCGACG--ACUGCUAGC-ACA-CGGUCaug -5'
9210 5' -53.7 NC_002512.2 + 22744 1.13 0.003846
Target:  5'- cGGCUGCUGACGAUCGUGUGCCAGUACa -3'
miRNA:   3'- -CCGACGACUGCUAGCACACGGUCAUG- -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.