miRNA display CGI


Results 1 - 20 of 43 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
28146 3' -60.2 NC_005887.1 + 41596 0.66 0.332152
Target:  5'- -cAGcGGCGgcccaggUGCGGCGGCc-GGCGCGGc -3'
miRNA:   3'- cuUC-CCGU-------GCGCCGUCGuaCCGCGUC- -5'
28146 3' -60.2 NC_005887.1 + 32735 0.69 0.215847
Target:  5'- -cGGGGUAgCGCGGCGcucGCGUGcGCGCc- -3'
miRNA:   3'- cuUCCCGU-GCGCCGU---CGUAC-CGCGuc -5'
28146 3' -60.2 NC_005887.1 + 17380 0.69 0.219883
Target:  5'- cGAGGGCucgcuguugaacGCGCuggucgaucacgucGGCGGCAUGGCGaAGa -3'
miRNA:   3'- cUUCCCG------------UGCG--------------CCGUCGUACCGCgUC- -5'
28146 3' -60.2 NC_005887.1 + 8557 0.69 0.221632
Target:  5'- gGAGGGcGCAUGCcgaaGGCAGCAccGCaGCAGg -3'
miRNA:   3'- -CUUCC-CGUGCG----CCGUCGUacCG-CGUC- -5'
28146 3' -60.2 NC_005887.1 + 5412 0.68 0.246103
Target:  5'- cGgcGGGCgGCGCcGCAGCGaccGGCGCGa -3'
miRNA:   3'- -CuuCCCG-UGCGcCGUCGUa--CCGCGUc -5'
28146 3' -60.2 NC_005887.1 + 13961 0.67 0.279792
Target:  5'- aGAcGGGCGCGCGGU--CAcGGUGCAc -3'
miRNA:   3'- -CUuCCCGUGCGCCGucGUaCCGCGUc -5'
28146 3' -60.2 NC_005887.1 + 33742 0.67 0.30096
Target:  5'- cGAGGaucaGCGCGcCGGCcuucacgAGCAucUGGCGCGGc -3'
miRNA:   3'- cUUCC----CGUGC-GCCG-------UCGU--ACCGCGUC- -5'
28146 3' -60.2 NC_005887.1 + 13592 0.67 0.307013
Target:  5'- aGGAGGcCGCGUacuucaucgcugcuGGCAGCGcGGCGCGc -3'
miRNA:   3'- -CUUCCcGUGCG--------------CCGUCGUaCCGCGUc -5'
28146 3' -60.2 NC_005887.1 + 29664 0.66 0.324931
Target:  5'- ---cGGCGCGaGGUAGCAcagcUGGCGCu- -3'
miRNA:   3'- cuucCCGUGCgCCGUCGU----ACCGCGuc -5'
28146 3' -60.2 NC_005887.1 + 2203 0.7 0.193988
Target:  5'- --cGGGCAgCGCaaaccgaugGGCGGC-UGGCGCAu -3'
miRNA:   3'- cuuCCCGU-GCG---------CCGUCGuACCGCGUc -5'
28146 3' -60.2 NC_005887.1 + 15855 0.7 0.188835
Target:  5'- cGAGGGaaacGCcCGCGcGCAGCA-GGCGCAc -3'
miRNA:   3'- -CUUCC----CGuGCGC-CGUCGUaCCGCGUc -5'
28146 3' -60.2 NC_005887.1 + 1904 0.7 0.188835
Target:  5'- cGAGGGCuACGCguucuuucGGCAGCcgGGCgGCGu -3'
miRNA:   3'- cUUCCCG-UGCG--------CCGUCGuaCCG-CGUc -5'
28146 3' -60.2 NC_005887.1 + 14629 0.8 0.035023
Target:  5'- cGAGGGCGCGCucacGGCAGCc-GGCGCGGu -3'
miRNA:   3'- cUUCCCGUGCG----CCGUCGuaCCGCGUC- -5'
28146 3' -60.2 NC_005887.1 + 40531 0.77 0.05764
Target:  5'- ---cGGCGCGCGGCAGCGacgacggucUGGCGCu- -3'
miRNA:   3'- cuucCCGUGCGCCGUCGU---------ACCGCGuc -5'
28146 3' -60.2 NC_005887.1 + 21264 0.76 0.072693
Target:  5'- cGGGGGCAcCGCGGCGGC--GGCGUAu -3'
miRNA:   3'- cUUCCCGU-GCGCCGUCGuaCCGCGUc -5'
28146 3' -60.2 NC_005887.1 + 25482 0.75 0.079032
Target:  5'- --uGGGCACaacgcaGCGGCGGCucggacgAUGGCGCGGc -3'
miRNA:   3'- cuuCCCGUG------CGCCGUCG-------UACCGCGUC- -5'
28146 3' -60.2 NC_005887.1 + 14695 0.74 0.094133
Target:  5'- --cGGGCucguCGCGGCgggcgGGCcgGGCGCGGc -3'
miRNA:   3'- cuuCCCGu---GCGCCG-----UCGuaCCGCGUC- -5'
28146 3' -60.2 NC_005887.1 + 6048 0.72 0.135855
Target:  5'- --uGGuGCugGUGGCAGC--GGCGCGGc -3'
miRNA:   3'- cuuCC-CGugCGCCGUCGuaCCGCGUC- -5'
28146 3' -60.2 NC_005887.1 + 15754 0.71 0.151375
Target:  5'- -cAGGGCAugaaguacaaggcCGCGGCcGCGaaGGCGCAGa -3'
miRNA:   3'- cuUCCCGU-------------GCGCCGuCGUa-CCGCGUC- -5'
28146 3' -60.2 NC_005887.1 + 23236 0.7 0.174092
Target:  5'- ---cGGCACGCGaGCGGCGgcggucGGCGCGc -3'
miRNA:   3'- cuucCCGUGCGC-CGUCGUa-----CCGCGUc -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.