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
28376 3' -53.3 NC_005946.1 + 26434 0.66 0.936878
Target:  5'- --aCCACCCcgcagagGUCCcugUCCUCGGGAGcCGg -3'
miRNA:   3'- acaGGUGGG-------UAGG---AGGAGCUUUCuGU- -5'
28376 3' -53.3 NC_005946.1 + 4657 0.66 0.926779
Target:  5'- uUGUCCAgCCA-CCUCCUguccacAAAGGCGg -3'
miRNA:   3'- -ACAGGUgGGUaGGAGGAgc----UUUCUGU- -5'
28376 3' -53.3 NC_005946.1 + 63909 0.66 0.921085
Target:  5'- cGUCCACCaUGUCgaCCUUGGAgauGGACu -3'
miRNA:   3'- aCAGGUGG-GUAGgaGGAGCUU---UCUGu -5'
28376 3' -53.3 NC_005946.1 + 60170 0.66 0.921085
Target:  5'- gGUCCACCCAgauguaCCU-CUCGGAgccggucaGGGCu -3'
miRNA:   3'- aCAGGUGGGUa-----GGAgGAGCUU--------UCUGu -5'
28376 3' -53.3 NC_005946.1 + 48496 0.66 0.915131
Target:  5'- aGUCUccugACCCAggacCCUCCUgaGGAAGAUg -3'
miRNA:   3'- aCAGG----UGGGUa---GGAGGAg-CUUUCUGu -5'
28376 3' -53.3 NC_005946.1 + 66297 0.68 0.850271
Target:  5'- aUGUcCCGCCUGaCCUCCUCGGAcccuucccuGGugGu -3'
miRNA:   3'- -ACA-GGUGGGUaGGAGGAGCUU---------UCugU- -5'
28376 3' -53.3 NC_005946.1 + 72075 0.68 0.841901
Target:  5'- gGUCCuCaacgCCUCCUCGuuGGACAg -3'
miRNA:   3'- aCAGGuGgguaGGAGGAGCuuUCUGU- -5'
28376 3' -53.3 NC_005946.1 + 36965 0.69 0.824545
Target:  5'- -cUCCGCCCcucUCCUCCaccUCG-GAGGCAa -3'
miRNA:   3'- acAGGUGGGu--AGGAGG---AGCuUUCUGU- -5'
28376 3' -53.3 NC_005946.1 + 76860 0.69 0.824545
Target:  5'- --cCCGCCCAUCC-CCUgGAcgacacGGACAa -3'
miRNA:   3'- acaGGUGGGUAGGaGGAgCUu-----UCUGU- -5'
28376 3' -53.3 NC_005946.1 + 36097 0.69 0.806426
Target:  5'- cGcCCACCCccCCUCCUCGAGc---- -3'
miRNA:   3'- aCaGGUGGGuaGGAGGAGCUUucugu -5'
28376 3' -53.3 NC_005946.1 + 39692 0.69 0.787618
Target:  5'- aGUCCGC---UCCUCCcUGAGAGACGu -3'
miRNA:   3'- aCAGGUGgguAGGAGGaGCUUUCUGU- -5'
28376 3' -53.3 NC_005946.1 + 43908 0.7 0.7682
Target:  5'- cGUCCcagugGCCCGccacUCCUCCUCccauGAcAGACAg -3'
miRNA:   3'- aCAGG-----UGGGU----AGGAGGAG----CUuUCUGU- -5'
28376 3' -53.3 NC_005946.1 + 67879 0.71 0.686076
Target:  5'- -cUCCGCCucgggguaguCAUCggCCUCGAGAGACAg -3'
miRNA:   3'- acAGGUGG----------GUAGgaGGAGCUUUCUGU- -5'
28376 3' -53.3 NC_005946.1 + 3701 0.73 0.567916
Target:  5'- cUGUCCACCUG-CCUCCUCuccgugaGGAGGAUg -3'
miRNA:   3'- -ACAGGUGGGUaGGAGGAG-------CUUUCUGu -5'
28376 3' -53.3 NC_005946.1 + 3028 0.74 0.527262
Target:  5'- cGUCguCCCggCCUCCagGAGGGACAg -3'
miRNA:   3'- aCAGguGGGuaGGAGGagCUUUCUGU- -5'
28376 3' -53.3 NC_005946.1 + 36650 1.09 0.003359
Target:  5'- cUGUCCACCCAUCCUCCUCGAAAGACAg -3'
miRNA:   3'- -ACAGGUGGGUAGGAGGAGCUUUCUGU- -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.