miRNA display CGI


Results 1 - 20 of 40 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
26419 5' -57.2 NC_005345.2 + 41234 1.08 0.000593
Target:  5'- gGGAGCCAAGGCAGGCGAUCAGGUCGUc -3'
miRNA:   3'- -CCUCGGUUCCGUCCGCUAGUCCAGCA- -5'
26419 5' -57.2 NC_005345.2 + 43500 0.75 0.158913
Target:  5'- cGGGCCcgccGGGCGGuGcCGAUCGGGUCGg -3'
miRNA:   3'- cCUCGGu---UCCGUC-C-GCUAGUCCAGCa -5'
26419 5' -57.2 NC_005345.2 + 18836 0.75 0.167825
Target:  5'- cGGGCCuggucaacGGGGCAGGCGAgCAGGUgCGg -3'
miRNA:   3'- cCUCGG--------UUCCGUCCGCUaGUCCA-GCa -5'
26419 5' -57.2 NC_005345.2 + 34617 0.73 0.213667
Target:  5'- aGGAGCCAGcGuGC-GGCGGUCGGGgCGg -3'
miRNA:   3'- -CCUCGGUU-C-CGuCCGCUAGUCCaGCa -5'
26419 5' -57.2 NC_005345.2 + 30371 0.72 0.256416
Target:  5'- cGGcAGCCcgcGGCGGGCG--CAGGUCGa -3'
miRNA:   3'- -CC-UCGGuu-CCGUCCGCuaGUCCAGCa -5'
26419 5' -57.2 NC_005345.2 + 7950 0.72 0.269855
Target:  5'- cGAGCCGgcGGGCGGG-GAUCccgucGGUCGUc -3'
miRNA:   3'- cCUCGGU--UCCGUCCgCUAGu----CCAGCA- -5'
26419 5' -57.2 NC_005345.2 + 20151 0.71 0.289614
Target:  5'- gGGAGCCAccgcgcgAGGCGGaaGCGGUucaccugCAGGUCGc -3'
miRNA:   3'- -CCUCGGU-------UCCGUC--CGCUA-------GUCCAGCa -5'
26419 5' -57.2 NC_005345.2 + 17572 0.71 0.291068
Target:  5'- aGGGCCc-GGCAGaGCuGcAUCAGGUCGUg -3'
miRNA:   3'- cCUCGGuuCCGUC-CG-C-UAGUCCAGCA- -5'
26419 5' -57.2 NC_005345.2 + 15183 0.71 0.298424
Target:  5'- cGGcGCCcgacuGGaauccGCGGGUGAUCAGGUCGa -3'
miRNA:   3'- -CCuCGGu----UC-----CGUCCGCUAGUCCAGCa -5'
26419 5' -57.2 NC_005345.2 + 4345 0.71 0.313565
Target:  5'- cGAGCCGGGGUccugccucGGGCGggCGGGcCGc -3'
miRNA:   3'- cCUCGGUUCCG--------UCCGCuaGUCCaGCa -5'
26419 5' -57.2 NC_005345.2 + 14891 0.7 0.329281
Target:  5'- cGGGCCGAGGCggagcagcGGGCGAagCGGGcCGc -3'
miRNA:   3'- cCUCGGUUCCG--------UCCGCUa-GUCCaGCa -5'
26419 5' -57.2 NC_005345.2 + 23110 0.7 0.329281
Target:  5'- --cGCCGAGGCGagcgaggcGGCGAgUCGGGUCu- -3'
miRNA:   3'- ccuCGGUUCCGU--------CCGCU-AGUCCAGca -5'
26419 5' -57.2 NC_005345.2 + 40342 0.7 0.337355
Target:  5'- --cGCCGuGGCGGGCGA-CGGGUaCGg -3'
miRNA:   3'- ccuCGGUuCCGUCCGCUaGUCCA-GCa -5'
26419 5' -57.2 NC_005345.2 + 30994 0.7 0.342267
Target:  5'- cGAGCCGAGGCuguacccgacgccGGgGAUCGGGaCGa -3'
miRNA:   3'- cCUCGGUUCCGu------------CCgCUAGUCCaGCa -5'
26419 5' -57.2 NC_005345.2 + 5753 0.7 0.345571
Target:  5'- -cAGCCGAGGacugcgccgAGGCGGUCcgcAGGUCGg -3'
miRNA:   3'- ccUCGGUUCCg--------UCCGCUAG---UCCAGCa -5'
26419 5' -57.2 NC_005345.2 + 40630 0.7 0.35393
Target:  5'- cGAGCCGcGGCAuGGCGAgcaAGGaCGUg -3'
miRNA:   3'- cCUCGGUuCCGU-CCGCUag-UCCaGCA- -5'
26419 5' -57.2 NC_005345.2 + 22278 0.69 0.379854
Target:  5'- cGGAucGUCGAGGCggccgGGGCGAcgUGGGUCGa -3'
miRNA:   3'- -CCU--CGGUUCCG-----UCCGCUa-GUCCAGCa -5'
26419 5' -57.2 NC_005345.2 + 28679 0.69 0.397829
Target:  5'- cGGGGCCAcAGGCgAGGCGuuggcuacUCGGGcgCGg -3'
miRNA:   3'- -CCUCGGU-UCCG-UCCGCu-------AGUCCa-GCa -5'
26419 5' -57.2 NC_005345.2 + 43594 0.69 0.407018
Target:  5'- cGGuGCCGAGGacguucguCAcGCuGAUCAGGUCGg -3'
miRNA:   3'- -CCuCGGUUCC--------GUcCG-CUAGUCCAGCa -5'
26419 5' -57.2 NC_005345.2 + 376 0.68 0.434405
Target:  5'- uGAGCCAcguGGCGaacacguGGCGA--AGGUCGUg -3'
miRNA:   3'- cCUCGGUu--CCGU-------CCGCUagUCCAGCA- -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.