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
28483 5' -60.8 NC_005946.1 + 87913 0.66 0.614559
Target:  5'- gGCCuUGaUCAgGGUGGA-CUUGCCGg -3'
miRNA:   3'- aCGGuACgAGUgCCGCCUgGAGCGGC- -5'
28483 5' -60.8 NC_005946.1 + 97477 0.66 0.614559
Target:  5'- cGCCAUggGCUUGCGGuUGGuggcgugcaugACCUUGCCc -3'
miRNA:   3'- aCGGUA--CGAGUGCC-GCC-----------UGGAGCGGc -5'
28483 5' -60.8 NC_005946.1 + 62191 0.66 0.604415
Target:  5'- cUGCCA-GCUC-CGGCuuGCCUcCGCUGu -3'
miRNA:   3'- -ACGGUaCGAGuGCCGccUGGA-GCGGC- -5'
28483 5' -60.8 NC_005946.1 + 10735 0.66 0.584196
Target:  5'- -cCCAgUGCUgGgGGCGGAgguCCUCGCgGg -3'
miRNA:   3'- acGGU-ACGAgUgCCGCCU---GGAGCGgC- -5'
28483 5' -60.8 NC_005946.1 + 76924 0.67 0.544218
Target:  5'- cUGCUcgGCUCccACGGCGuacCCUgGCCa -3'
miRNA:   3'- -ACGGuaCGAG--UGCCGCcu-GGAgCGGc -5'
28483 5' -60.8 NC_005946.1 + 93146 0.67 0.544218
Target:  5'- cGCUGUGCUCAgGGCGGAgggaggCagGCUGg -3'
miRNA:   3'- aCGGUACGAGUgCCGCCUg-----GagCGGC- -5'
28483 5' -60.8 NC_005946.1 + 84102 0.67 0.544218
Target:  5'- cGCCAuagUGCUCGC-GCuGGCCgaUCGCCu -3'
miRNA:   3'- aCGGU---ACGAGUGcCGcCUGG--AGCGGc -5'
28483 5' -60.8 NC_005946.1 + 61873 0.67 0.541252
Target:  5'- aUGgCAUGUagGCGGCGuaggauccccuccuGACCUUGCCu -3'
miRNA:   3'- -ACgGUACGagUGCCGC--------------CUGGAGCGGc -5'
28483 5' -60.8 NC_005946.1 + 101991 0.67 0.534354
Target:  5'- cGCCA--CUCAUGucaaccgacaGGGCCUCGCCGa -3'
miRNA:   3'- aCGGUacGAGUGCcg--------CCUGGAGCGGC- -5'
28483 5' -60.8 NC_005946.1 + 20272 0.67 0.514826
Target:  5'- cGCCGUcaccGCUCACGGUcuucccuuuGGGCUUUGCg- -3'
miRNA:   3'- aCGGUA----CGAGUGCCG---------CCUGGAGCGgc -5'
28483 5' -60.8 NC_005946.1 + 79499 0.68 0.50517
Target:  5'- aGCCGguuucaggcUGCUCcUGGCccACCUCGCCa -3'
miRNA:   3'- aCGGU---------ACGAGuGCCGccUGGAGCGGc -5'
28483 5' -60.8 NC_005946.1 + 44663 0.68 0.50517
Target:  5'- gGCCuGUGcCUgGCGGCGGACgUCGaCa -3'
miRNA:   3'- aCGG-UAC-GAgUGCCGCCUGgAGCgGc -5'
28483 5' -60.8 NC_005946.1 + 34007 0.68 0.458156
Target:  5'- cGUCGUGC--GCGGgGGcCCUUGCCa -3'
miRNA:   3'- aCGGUACGagUGCCgCCuGGAGCGGc -5'
28483 5' -60.8 NC_005946.1 + 94663 0.69 0.440012
Target:  5'- cGCCcUGCUCAgGGguccGACCUCGCaCGu -3'
miRNA:   3'- aCGGuACGAGUgCCgc--CUGGAGCG-GC- -5'
28483 5' -60.8 NC_005946.1 + 95496 0.72 0.304092
Target:  5'- cGCC--GC-CGCGuaGGACCUCGCCa -3'
miRNA:   3'- aCGGuaCGaGUGCcgCCUGGAGCGGc -5'
28483 5' -60.8 NC_005946.1 + 16612 0.73 0.234737
Target:  5'- gGUCAUggGCUCGuCGGCGGACCUaguuUGCCu -3'
miRNA:   3'- aCGGUA--CGAGU-GCCGCCUGGA----GCGGc -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.