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
19620 5' -60.6 NC_004686.1 + 3110 0.66 0.455848
Target:  5'- cGCGAGCCcggaUGCGCauuGGUcugacaucaaugGGUUGGCGa -3'
miRNA:   3'- cCGCUCGG----ACGUGg--UCA------------CCAGCCGCa -5'
19620 5' -60.6 NC_004686.1 + 39384 0.66 0.44068
Target:  5'- cGCGGGCacgCUGCACggugCGGUGGuggcagcccagcuguUCGGCGa -3'
miRNA:   3'- cCGCUCG---GACGUG----GUCACC---------------AGCCGCa -5'
19620 5' -60.6 NC_004686.1 + 56116 0.66 0.436933
Target:  5'- aGGCGAcgcgGCCggguuggcggGUGCCGGgcgGGUgGGCGa -3'
miRNA:   3'- -CCGCU----CGGa---------CGUGGUCa--CCAgCCGCa -5'
19620 5' -60.6 NC_004686.1 + 22727 0.66 0.434134
Target:  5'- uGCGGGCCUGCcgaauguugggcugGCCAccGGUgaUGGCGa -3'
miRNA:   3'- cCGCUCGGACG--------------UGGUcaCCA--GCCGCa -5'
19620 5' -60.6 NC_004686.1 + 10836 0.66 0.418477
Target:  5'- gGGCG-GCUUGCGCCGcGggGGUgcCGGCa- -3'
miRNA:   3'- -CCGCuCGGACGUGGU-Ca-CCA--GCCGca -5'
19620 5' -60.6 NC_004686.1 + 38831 0.67 0.366069
Target:  5'- aGGCuuuGCg-GCGCCAGUcGUCGGUGUg -3'
miRNA:   3'- -CCGcu-CGgaCGUGGUCAcCAGCCGCA- -5'
19620 5' -60.6 NC_004686.1 + 9227 0.67 0.36274
Target:  5'- cGGCGGcGCCgUGCACagaaacaacgggaGGUGGcCGGUGg -3'
miRNA:   3'- -CCGCU-CGG-ACGUGg------------UCACCaGCCGCa -5'
19620 5' -60.6 NC_004686.1 + 19375 0.67 0.357786
Target:  5'- uGGCGGGCggGCAucagaaggugcCCAGUGGU-GGUGg -3'
miRNA:   3'- -CCGCUCGgaCGU-----------GGUCACCAgCCGCa -5'
19620 5' -60.6 NC_004686.1 + 27125 0.68 0.340822
Target:  5'- cGGCGAGCCaGCucgaacaggaagGCguGUgucacuggaaaccGGUCGGCGa -3'
miRNA:   3'- -CCGCUCGGaCG------------UGguCA-------------CCAGCCGCa -5'
19620 5' -60.6 NC_004686.1 + 36205 0.68 0.325982
Target:  5'- gGGCGGGCCUGuCAUU--UGGcUUGGCGa -3'
miRNA:   3'- -CCGCUCGGAC-GUGGucACC-AGCCGCa -5'
19620 5' -60.6 NC_004686.1 + 53484 0.69 0.296325
Target:  5'- aGGC-AGCg-GCACCGGUGGU-GGUGUc -3'
miRNA:   3'- -CCGcUCGgaCGUGGUCACCAgCCGCA- -5'
19620 5' -60.6 NC_004686.1 + 9892 0.69 0.289246
Target:  5'- cGGUGAGagaCUGU-CCAGUGGggacgcCGGCGg -3'
miRNA:   3'- -CCGCUCg--GACGuGGUCACCa-----GCCGCa -5'
19620 5' -60.6 NC_004686.1 + 22822 0.69 0.289246
Target:  5'- cGCGAuaGCCgcgGCGCCGGgGGUUaGGCGg -3'
miRNA:   3'- cCGCU--CGGa--CGUGGUCaCCAG-CCGCa -5'
19620 5' -60.6 NC_004686.1 + 30049 0.69 0.2823
Target:  5'- aGGU--GCCUGUcucaGCCGG-GGUCGGUGUg -3'
miRNA:   3'- -CCGcuCGGACG----UGGUCaCCAGCCGCA- -5'
19620 5' -60.6 NC_004686.1 + 9528 0.69 0.268807
Target:  5'- aGCGGcGUCUGCACCAGccuUGG-CGGCu- -3'
miRNA:   3'- cCGCU-CGGACGUGGUC---ACCaGCCGca -5'
19620 5' -60.6 NC_004686.1 + 5407 0.7 0.255839
Target:  5'- gGGCGuGGCUgagGUGCCGGUGGUCaGCu- -3'
miRNA:   3'- -CCGC-UCGGa--CGUGGUCACCAGcCGca -5'
19620 5' -60.6 NC_004686.1 + 12136 0.7 0.24955
Target:  5'- cGGCGGGCaguuucgGCGCCGGcGGUCaGGCc- -3'
miRNA:   3'- -CCGCUCGga-----CGUGGUCaCCAG-CCGca -5'
19620 5' -60.6 NC_004686.1 + 21593 0.71 0.214462
Target:  5'- gGGUcAGCCUGCGCUuGUGGUugaugUGGCGa -3'
miRNA:   3'- -CCGcUCGGACGUGGuCACCA-----GCCGCa -5'
19620 5' -60.6 NC_004686.1 + 38960 0.73 0.152782
Target:  5'- uGGCGAGCUgGCACCGGUGaaGcCGGCc- -3'
miRNA:   3'- -CCGCUCGGaCGUGGUCAC--CaGCCGca -5'
19620 5' -60.6 NC_004686.1 + 16990 0.78 0.071166
Target:  5'- -aCGGGCCUGgcCGCCGGcgGGUCGGCGUa -3'
miRNA:   3'- ccGCUCGGAC--GUGGUCa-CCAGCCGCA- -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.