miRNA display CGI


Results 1 - 20 of 48 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
18556 3' -54.2 NC_004682.1 + 47077 0.69 0.608374
Target:  5'- aGCCGCcCGGAUagGAGGUgguugccCGGACGGCg -3'
miRNA:   3'- -UGGUGaGCUUGg-CUUCGa------GCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 28093 0.7 0.521085
Target:  5'- -aCGCUCGGGCgUGGcuGCUCGcGGCGGCg -3'
miRNA:   3'- ugGUGAGCUUG-GCUu-CGAGC-CUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 18338 0.85 0.059992
Target:  5'- gGCCcguuCUCGGGCCGAGGCUgGGugAGCu -3'
miRNA:   3'- -UGGu---GAGCUUGGCUUCGAgCCugUCG- -5'
18556 3' -54.2 NC_004682.1 + 42525 0.7 0.51048
Target:  5'- --uGCUCGAuguacCCGAcguGGCUCGG-CGGCg -3'
miRNA:   3'- uggUGAGCUu----GGCU---UCGAGCCuGUCG- -5'
18556 3' -54.2 NC_004682.1 + 33052 0.79 0.15009
Target:  5'- cCCGCgu--GCCGggGUUCGGACGGCu -3'
miRNA:   3'- uGGUGagcuUGGCuuCGAGCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 4875 0.77 0.202847
Target:  5'- aGCCACgCGGAgUGAagGGCUCGGugAGCc -3'
miRNA:   3'- -UGGUGaGCUUgGCU--UCGAGCCugUCG- -5'
18556 3' -54.2 NC_004682.1 + 18960 0.75 0.270975
Target:  5'- cGCCAaggagGGGCUGAAGUUCGGugAGCa -3'
miRNA:   3'- -UGGUgag--CUUGGCUUCGAGCCugUCG- -5'
18556 3' -54.2 NC_004682.1 + 14670 0.8 0.138032
Target:  5'- gGCCugUgGAcGCCGAccGGCUgGGACAGCa -3'
miRNA:   3'- -UGGugAgCU-UGGCU--UCGAgCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 3173 0.7 0.531776
Target:  5'- cACCACggCGGGCCaGGGCgCGGGCAaccGCg -3'
miRNA:   3'- -UGGUGa-GCUUGGcUUCGaGCCUGU---CG- -5'
18556 3' -54.2 NC_004682.1 + 4949 0.69 0.608374
Target:  5'- gGCUACgaCGAcacccCCGguGCUCGGGCGGUc -3'
miRNA:   3'- -UGGUGa-GCUu----GGCuuCGAGCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 31986 0.83 0.082631
Target:  5'- gGCCAUcUGGACCGGcuGCUCGGGCGGCg -3'
miRNA:   3'- -UGGUGaGCUUGGCUu-CGAGCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 11509 0.68 0.630579
Target:  5'- cCCACUCa-----GGGCUCGGGCAGCc -3'
miRNA:   3'- uGGUGAGcuuggcUUCGAGCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 21316 0.68 0.640578
Target:  5'- gACaACUCGGGCUGggGCagugagaccgccuUCGG-CGGCu -3'
miRNA:   3'- -UGgUGAGCUUGGCuuCG-------------AGCCuGUCG- -5'
18556 3' -54.2 NC_004682.1 + 30373 0.68 0.641689
Target:  5'- gGCuCGcCUCGcGCUGGAGCUUGGcgcuCAGCc -3'
miRNA:   3'- -UG-GU-GAGCuUGGCUUCGAGCCu---GUCG- -5'
18556 3' -54.2 NC_004682.1 + 6857 0.67 0.674922
Target:  5'- gGCCcgaACUcCGuugugucccAACUGAucgAGCUUGGACAGCg -3'
miRNA:   3'- -UGG---UGA-GC---------UUGGCU---UCGAGCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 9436 0.67 0.674922
Target:  5'- uUCGCUCGGucACCGAcgcAGCUgccCGGAC-GCu -3'
miRNA:   3'- uGGUGAGCU--UGGCU---UCGA---GCCUGuCG- -5'
18556 3' -54.2 NC_004682.1 + 38019 0.67 0.69689
Target:  5'- cGCCucCUCGGuGCCGAGGUgccucagCGccGACAGCg -3'
miRNA:   3'- -UGGu-GAGCU-UGGCUUCGa------GC--CUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 34550 0.67 0.701255
Target:  5'- aGCCACUUGAAcuccucguucguCCGGGcCUCGGAguacuuccauccgcaCAGCg -3'
miRNA:   3'- -UGGUGAGCUU------------GGCUUcGAGCCU---------------GUCG- -5'
18556 3' -54.2 NC_004682.1 + 6334 0.67 0.717523
Target:  5'- cCCGCUgGGuccgggacuccccGCCGAcacGGCgCGGGCGGUg -3'
miRNA:   3'- uGGUGAgCU-------------UGGCU---UCGaGCCUGUCG- -5'
18556 3' -54.2 NC_004682.1 + 45548 0.67 0.718601
Target:  5'- cCCGCcUGcGCCGggGC-CGGcgugaGCAGCa -3'
miRNA:   3'- uGGUGaGCuUGGCuuCGaGCC-----UGUCG- -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.