miRNA display CGI


Results 1 - 20 of 29 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
23368 3' -57.4 NC_005259.1 + 9546 0.66 0.668393
Target:  5'- -cGGAgAGCuGCc-CGGCCUCgACCGCg -3'
miRNA:   3'- cuCCUgUCGcCGauGCUGGAG-UGGUG- -5'
23368 3' -57.4 NC_005259.1 + 16704 0.66 0.667322
Target:  5'- cGAGGugAccgccgaGCaGGUcGCGcucuGCCUCGCCACg -3'
miRNA:   3'- -CUCCugU-------CG-CCGaUGC----UGGAGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 61606 0.66 0.657664
Target:  5'- uGGGGuCGGCGGggAacagcaGACCggCACCGCc -3'
miRNA:   3'- -CUCCuGUCGCCgaUg-----CUGGa-GUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 8985 0.66 0.657664
Target:  5'- uAGGugcCAGCGGCgACGGCa--GCCGCc -3'
miRNA:   3'- cUCCu--GUCGCCGaUGCUGgagUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 10184 0.66 0.633994
Target:  5'- uGAGGGCAGCacaucGUgaugACGACCgggcagcucgacCACCACg -3'
miRNA:   3'- -CUCCUGUCGc----CGa---UGCUGGa-----------GUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 46086 0.66 0.62538
Target:  5'- cGGGGCgAGCGGU----GCCUCaACCACg -3'
miRNA:   3'- cUCCUG-UCGCCGaugcUGGAG-UGGUG- -5'
23368 3' -57.4 NC_005259.1 + 50511 0.67 0.593146
Target:  5'- -uGGGCGGUGcGCUGC-ACCUCGaCGCg -3'
miRNA:   3'- cuCCUGUCGC-CGAUGcUGGAGUgGUG- -5'
23368 3' -57.4 NC_005259.1 + 53136 0.67 0.561193
Target:  5'- aGAGGAagaaaugaccauCAGCcGCUAcgccgaggcCGAUCUCGCCACc -3'
miRNA:   3'- -CUCCU------------GUCGcCGAU---------GCUGGAGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 60389 0.67 0.550642
Target:  5'- -cGGACAGCGGCgagGCGagGCC-CAUCuCg -3'
miRNA:   3'- cuCCUGUCGCCGa--UGC--UGGaGUGGuG- -5'
23368 3' -57.4 NC_005259.1 + 18379 0.67 0.550642
Target:  5'- cGAGGGCGGUaGCgagggagACGAgcaCCUCGCCGa -3'
miRNA:   3'- -CUCCUGUCGcCGa------UGCU---GGAGUGGUg -5'
23368 3' -57.4 NC_005259.1 + 32530 0.68 0.528692
Target:  5'- -cGGGCGGCaGGCU-UGACCUUgcuguugGCCGCc -3'
miRNA:   3'- cuCCUGUCG-CCGAuGCUGGAG-------UGGUG- -5'
23368 3' -57.4 NC_005259.1 + 13110 0.68 0.519383
Target:  5'- -cGGcccgcuCGGCGGCUACGACCa-GCgCACg -3'
miRNA:   3'- cuCCu-----GUCGCCGAUGCUGGagUG-GUG- -5'
23368 3' -57.4 NC_005259.1 + 63091 0.68 0.519383
Target:  5'- uGAcGACAuCGGCUGCGAaCUCACgGCa -3'
miRNA:   3'- -CUcCUGUcGCCGAUGCUgGAGUGgUG- -5'
23368 3' -57.4 NC_005259.1 + 26530 0.68 0.509116
Target:  5'- -cGGugAGCaGCUuggccaccACGAUCUCACCGa -3'
miRNA:   3'- cuCCugUCGcCGA--------UGCUGGAGUGGUg -5'
23368 3' -57.4 NC_005259.1 + 3335 0.68 0.498936
Target:  5'- -cGGGCAGCu-CUGCGugCUCGgCACg -3'
miRNA:   3'- cuCCUGUCGccGAUGCugGAGUgGUG- -5'
23368 3' -57.4 NC_005259.1 + 5726 0.68 0.498936
Target:  5'- -cGGACGGCGGCcauucucGCGGCCaaGCgGCg -3'
miRNA:   3'- cuCCUGUCGCCGa------UGCUGGagUGgUG- -5'
23368 3' -57.4 NC_005259.1 + 46667 0.68 0.498936
Target:  5'- uGAGGuucuCGGCGaGCU-CGGCCUgagcCGCCGCc -3'
miRNA:   3'- -CUCCu---GUCGC-CGAuGCUGGA----GUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 37187 0.68 0.488848
Target:  5'- cGAGGACGa--GCUGCGGCCcUUGCCGCc -3'
miRNA:   3'- -CUCCUGUcgcCGAUGCUGG-AGUGGUG- -5'
23368 3' -57.4 NC_005259.1 + 5650 0.69 0.478856
Target:  5'- cGAGGACGGCgGGCgcuacacgcGCGACaacaUCGCCccGCa -3'
miRNA:   3'- -CUCCUGUCG-CCGa--------UGCUGg---AGUGG--UG- -5'
23368 3' -57.4 NC_005259.1 + 1234 0.69 0.439943
Target:  5'- cGAGGACGGCuGCaagacCGGCCUCGgCAUc -3'
miRNA:   3'- -CUCCUGUCGcCGau---GCUGGAGUgGUG- -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.