miRNA display CGI


Results 1 - 16 of 16 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
30483 3' -60 NC_006548.1 + 4029 0.66 0.375928
Target:  5'- gAGCGAGcaggacUGCCgggaaGCCCugAAGGACg- -3'
miRNA:   3'- gUCGCUCc-----ACGG-----CGGGugUUCCUGgu -5'
30483 3' -60 NC_006548.1 + 30486 0.66 0.366302
Target:  5'- cCAGCauugaacGccGUGCCGCCCAUcAGG-CCAg -3'
miRNA:   3'- -GUCG-------CucCACGGCGGGUGuUCCuGGU- -5'
30483 3' -60 NC_006548.1 + 7430 0.66 0.35008
Target:  5'- gGGUGGGGgccgauaugGCCGCCCugGAuGcCCAg -3'
miRNA:   3'- gUCGCUCCa--------CGGCGGGugUUcCuGGU- -5'
30483 3' -60 NC_006548.1 + 13628 0.66 0.333563
Target:  5'- gCAGCuuGccGCCGCCCGCGcAGGcACCGa -3'
miRNA:   3'- -GUCGcuCcaCGGCGGGUGU-UCC-UGGU- -5'
30483 3' -60 NC_006548.1 + 22941 0.67 0.317625
Target:  5'- uCGGgGuGGacugGCCGCCgGCcucAAGGACCGc -3'
miRNA:   3'- -GUCgCuCCa---CGGCGGgUG---UUCCUGGU- -5'
30483 3' -60 NC_006548.1 + 27867 0.67 0.317625
Target:  5'- gGGUGAGGUGCaGCgCAguGGuGGCCGa -3'
miRNA:   3'- gUCGCUCCACGgCGgGUguUC-CUGGU- -5'
30483 3' -60 NC_006548.1 + 24526 0.67 0.317625
Target:  5'- aUAGUGGcGGUcuuGCCGCgCUGCAAGcGGCCAu -3'
miRNA:   3'- -GUCGCU-CCA---CGGCG-GGUGUUC-CUGGU- -5'
30483 3' -60 NC_006548.1 + 25961 0.67 0.297772
Target:  5'- gCAGCGGGGgcauuugaucUGCaauucgucguaacgGCCCGCGcGGGCCAg -3'
miRNA:   3'- -GUCGCUCC----------ACGg-------------CGGGUGUuCCUGGU- -5'
30483 3' -60 NC_006548.1 + 19991 0.67 0.294805
Target:  5'- uCAGCGAGGccCCGCUCGuCAucGGCCAc -3'
miRNA:   3'- -GUCGCUCCacGGCGGGU-GUucCUGGU- -5'
30483 3' -60 NC_006548.1 + 19959 0.68 0.280313
Target:  5'- gAGCGAcGUGCCgGCCgGCGGGGAg-- -3'
miRNA:   3'- gUCGCUcCACGG-CGGgUGUUCCUggu -5'
30483 3' -60 NC_006548.1 + 36278 0.68 0.259645
Target:  5'- -cGCGGGGUGCgGUCgGgCGGGGuCCAg -3'
miRNA:   3'- guCGCUCCACGgCGGgU-GUUCCuGGU- -5'
30483 3' -60 NC_006548.1 + 31717 0.68 0.246568
Target:  5'- gGGCGAGGgGCCGCCauccAGG-CCAu -3'
miRNA:   3'- gUCGCUCCaCGGCGGguguUCCuGGU- -5'
30483 3' -60 NC_006548.1 + 27006 0.7 0.205059
Target:  5'- uCGGCGAGuccGCCgaucagcagacgGCCCGCAucAGGGCCAu -3'
miRNA:   3'- -GUCGCUCca-CGG------------CGGGUGU--UCCUGGU- -5'
30483 3' -60 NC_006548.1 + 27103 0.7 0.205059
Target:  5'- gCAGCGAGGccGCCaccaugGCCCugAugcGGGCCGu -3'
miRNA:   3'- -GUCGCUCCa-CGG------CGGGugUu--CCUGGU- -5'
30483 3' -60 NC_006548.1 + 30402 0.78 0.051392
Target:  5'- uGGCGucGGUGCCGCCCAggcCAGGGGCg- -3'
miRNA:   3'- gUCGCu-CCACGGCGGGU---GUUCCUGgu -5'
30483 3' -60 NC_006548.1 + 34446 1.08 0.000218
Target:  5'- aCAGCGAGGUGCCGCCCACAAGGACCAg -3'
miRNA:   3'- -GUCGCUCCACGGCGGGUGUUCCUGGU- -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.