miRNA display CGI


Results 1 - 13 of 13 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
20460 3' -52.9 NC_004688.1 + 4871 0.66 0.952746
Target:  5'- gCGcUCGGAAAggauCGGCGUaucGAUcgCCAGAGCc -3'
miRNA:   3'- -GC-AGCCUUU----GUCGCA---CUA--GGUCUCGc -5'
20460 3' -52.9 NC_004688.1 + 17700 0.66 0.948467
Target:  5'- uCGUCGGcAACGGCGcgcuccacgGGUuCCGGcGCGg -3'
miRNA:   3'- -GCAGCCuUUGUCGCa--------CUA-GGUCuCGC- -5'
20460 3' -52.9 NC_004688.1 + 63200 0.67 0.93916
Target:  5'- uGUCGcc-ACcGCGacUGGUCCGGGGCGg -3'
miRNA:   3'- gCAGCcuuUGuCGC--ACUAGGUCUCGC- -5'
20460 3' -52.9 NC_004688.1 + 17426 0.67 0.93916
Target:  5'- aGUCGGguGCGGUGc--UCCAG-GCGg -3'
miRNA:   3'- gCAGCCuuUGUCGCacuAGGUCuCGC- -5'
20460 3' -52.9 NC_004688.1 + 27743 0.68 0.905121
Target:  5'- uCGUCGGuggugauguuGGACAGCGacg-CCAGGGCc -3'
miRNA:   3'- -GCAGCC----------UUUGUCGCacuaGGUCUCGc -5'
20460 3' -52.9 NC_004688.1 + 54445 0.69 0.837533
Target:  5'- uGcCGGAGgucguGCGGgGUGAUCCGGGGg- -3'
miRNA:   3'- gCaGCCUU-----UGUCgCACUAGGUCUCgc -5'
20460 3' -52.9 NC_004688.1 + 61805 0.7 0.820133
Target:  5'- uCGUCGG-AGCuGCG-GGUCCAGcGGCc -3'
miRNA:   3'- -GCAGCCuUUGuCGCaCUAGGUC-UCGc -5'
20460 3' -52.9 NC_004688.1 + 84444 0.7 0.811154
Target:  5'- gCGUCGGGAGcCAGCGauucagGAaucgcUCCAG-GCGg -3'
miRNA:   3'- -GCAGCCUUU-GUCGCa-----CU-----AGGUCuCGC- -5'
20460 3' -52.9 NC_004688.1 + 20552 0.72 0.69262
Target:  5'- gCGUCGaccAGCGGCGUGcccUCCAGGGCc -3'
miRNA:   3'- -GCAGCcu-UUGUCGCACu--AGGUCUCGc -5'
20460 3' -52.9 NC_004688.1 + 39903 0.73 0.671634
Target:  5'- cCGUCGGGGuuuuUGGCGUaGGUCCAGucGGCGc -3'
miRNA:   3'- -GCAGCCUUu---GUCGCA-CUAGGUC--UCGC- -5'
20460 3' -52.9 NC_004688.1 + 80794 0.74 0.618728
Target:  5'- ---aGGAGACGGUGUGAUCCAuucGAGgGa -3'
miRNA:   3'- gcagCCUUUGUCGCACUAGGU---CUCgC- -5'
20460 3' -52.9 NC_004688.1 + 10773 0.76 0.465235
Target:  5'- uCGUCGaccGAGACAGCGgccUGAUCCAGgAGCu -3'
miRNA:   3'- -GCAGC---CUUUGUCGC---ACUAGGUC-UCGc -5'
20460 3' -52.9 NC_004688.1 + 34665 1.09 0.004278
Target:  5'- aCGUCGGAAACAGCGUGAUCCAGAGCGc -3'
miRNA:   3'- -GCAGCCUUUGUCGCACUAGGUCUCGC- -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.