miRNA display CGI


Results 1 - 20 of 30 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
28132 3' -55.1 NC_005887.1 + 13601 1.1 0.000583
Target:  5'- cGUACUUCAUCGCUGCUGGCAGCGCGGc -3'
miRNA:   3'- -CAUGAAGUAGCGACGACCGUCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 42194 0.66 0.652909
Target:  5'- -cGCUggcUCGUCGCauUGCU-GC-GCGCGGu -3'
miRNA:   3'- caUGA---AGUAGCG--ACGAcCGuCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 37371 0.66 0.651779
Target:  5'- uUGCagCGUCgGCUuccuucuccuucaGCUGGCGcuGCGCGGu -3'
miRNA:   3'- cAUGaaGUAG-CGA-------------CGACCGU--CGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 6601 0.66 0.641606
Target:  5'- -aACgUCAUCGaC-GCUGGCGGCacCGGa -3'
miRNA:   3'- caUGaAGUAGC-GaCGACCGUCGc-GCC- -5'
28132 3' -55.1 NC_005887.1 + 13382 0.66 0.641606
Target:  5'- -cGC-UCG-CGCUGaaGGcCGGCGCGGc -3'
miRNA:   3'- caUGaAGUaGCGACgaCC-GUCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 34706 0.66 0.596409
Target:  5'- -gGCcgUCGUCGC-GCuUGcGguGCGCGGc -3'
miRNA:   3'- caUGa-AGUAGCGaCG-AC-CguCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 2641 0.67 0.585165
Target:  5'- -gGCgagUCAguacCUGCUGGUgGGCGCGGg -3'
miRNA:   3'- caUGa--AGUagc-GACGACCG-UCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 39813 0.67 0.551718
Target:  5'- -cACUUCG-CaCUGCUGGauaaAGCGCGa -3'
miRNA:   3'- caUGAAGUaGcGACGACCg---UCGCGCc -5'
28132 3' -55.1 NC_005887.1 + 6805 0.67 0.550612
Target:  5'- -gGCcUCA-CGCUGCgcgacUGGCgcuacguGGCGCGGg -3'
miRNA:   3'- caUGaAGUaGCGACG-----ACCG-------UCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 35614 0.68 0.494225
Target:  5'- cUGCUUCucgcccggguugaaGUCGCUcggGCUGaGCGGUGCGa -3'
miRNA:   3'- cAUGAAG--------------UAGCGA---CGAC-CGUCGCGCc -5'
28132 3' -55.1 NC_005887.1 + 11784 0.76 0.177153
Target:  5'- -gGCgUCcUCGCUGCUcGGCGGCGuCGGu -3'
miRNA:   3'- caUGaAGuAGCGACGA-CCGUCGC-GCC- -5'
28132 3' -55.1 NC_005887.1 + 18609 0.73 0.259108
Target:  5'- uUACggu-UCGUUGCUcGGCAGCGCGa -3'
miRNA:   3'- cAUGaaguAGCGACGA-CCGUCGCGCc -5'
28132 3' -55.1 NC_005887.1 + 14697 0.7 0.369518
Target:  5'- -gGC-UCGUCGCggcggGCgGGCcgGGCGCGGc -3'
miRNA:   3'- caUGaAGUAGCGa----CGaCCG--UCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 11207 0.7 0.397007
Target:  5'- -gGCUUCGUCGCcGaaGGCGuGCGcCGGa -3'
miRNA:   3'- caUGAAGUAGCGaCgaCCGU-CGC-GCC- -5'
28132 3' -55.1 NC_005887.1 + 3395 0.7 0.406458
Target:  5'- -cGCUguucgCcgCGCgcuaccGCUGGCAGgGCGGc -3'
miRNA:   3'- caUGAa----GuaGCGa-----CGACCGUCgCGCC- -5'
28132 3' -55.1 NC_005887.1 + 9821 0.7 0.406458
Target:  5'- -cGCgaacgCGUCGCaGCcGGuCAGCGCGGc -3'
miRNA:   3'- caUGaa---GUAGCGaCGaCC-GUCGCGCC- -5'
28132 3' -55.1 NC_005887.1 + 23563 0.69 0.43564
Target:  5'- -cGCccgCAUCGCcgGCcGGCAGUGCGa -3'
miRNA:   3'- caUGaa-GUAGCGa-CGaCCGUCGCGCc -5'
28132 3' -55.1 NC_005887.1 + 23474 0.7 0.378535
Target:  5'- -aGCUgaUCGacgCGCUGCUgcggcugccagcGGCAGCGCGa -3'
miRNA:   3'- caUGA--AGUa--GCGACGA------------CCGUCGCGCc -5'
28132 3' -55.1 NC_005887.1 + 7399 0.66 0.596409
Target:  5'- aUACguuUCGUCGCcagucguguUGUcGGCGGCGaCGGa -3'
miRNA:   3'- cAUGa--AGUAGCG---------ACGaCCGUCGC-GCC- -5'
28132 3' -55.1 NC_005887.1 + 28541 0.66 0.596409
Target:  5'- cUACUUCGUCGa-GCUGaaGCGGCcCGGc -3'
miRNA:   3'- cAUGAAGUAGCgaCGAC--CGUCGcGCC- -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.