miRNA display CGI


Results 1 - 14 of 14 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
28543 3' -58.1 NC_005946.1 + 85733 0.66 0.737994
Target:  5'- gAGAGGGUUCaugUACCUCgucACG-CCGGc -3'
miRNA:   3'- aUCUCCCGAGg--GUGGAGa--UGCaGGUC- -5'
28543 3' -58.1 NC_005946.1 + 56336 0.66 0.717906
Target:  5'- cUGGAGGacGCUgCCCugguCCUC-GCGUCCAu -3'
miRNA:   3'- -AUCUCC--CGA-GGGu---GGAGaUGCAGGUc -5'
28543 3' -58.1 NC_005946.1 + 83717 0.66 0.707743
Target:  5'- gUGGGGGGCgauccaggagUCCACCUCUggACG-CUGGg -3'
miRNA:   3'- -AUCUCCCGa---------GGGUGGAGA--UGCaGGUC- -5'
28543 3' -58.1 NC_005946.1 + 61973 0.66 0.697514
Target:  5'- aGGcuGGGGCUgCCCGCC-CU-CGUCCuGa -3'
miRNA:   3'- aUC--UCCCGA-GGGUGGaGAuGCAGGuC- -5'
28543 3' -58.1 NC_005946.1 + 72759 0.66 0.687227
Target:  5'- -uGAGGGCgcUCCCGCCaggCUGgcgugGUCCGGc -3'
miRNA:   3'- auCUCCCG--AGGGUGGa--GAUg----CAGGUC- -5'
28543 3' -58.1 NC_005946.1 + 26944 0.67 0.676893
Target:  5'- cAGGcGGGCUUCCucuGCCUggCcACGUCCAGc -3'
miRNA:   3'- aUCU-CCCGAGGG---UGGA--GaUGCAGGUC- -5'
28543 3' -58.1 NC_005946.1 + 56422 0.67 0.635267
Target:  5'- ---uGGGCUCCaggaGCCUUUG-GUCCGGa -3'
miRNA:   3'- aucuCCCGAGGg---UGGAGAUgCAGGUC- -5'
28543 3' -58.1 NC_005946.1 + 77050 0.67 0.635267
Target:  5'- -cGGGGGgUCUCACgggCUCUugGUCCu- -3'
miRNA:   3'- auCUCCCgAGGGUG---GAGAugCAGGuc -5'
28543 3' -58.1 NC_005946.1 + 56059 0.68 0.583231
Target:  5'- -uGAGGGUggCCCugU-CUACGUUCAGg -3'
miRNA:   3'- auCUCCCGa-GGGugGaGAUGCAGGUC- -5'
28543 3' -58.1 NC_005946.1 + 4260 0.69 0.552387
Target:  5'- -cGGGGGCUCCCACggagUgaGCGUCCc- -3'
miRNA:   3'- auCUCCCGAGGGUGg---AgaUGCAGGuc -5'
28543 3' -58.1 NC_005946.1 + 36002 0.7 0.502189
Target:  5'- cGGAGuGGcCUCCaggGCCUCgGCGUCCAu -3'
miRNA:   3'- aUCUC-CC-GAGGg--UGGAGaUGCAGGUc -5'
28543 3' -58.1 NC_005946.1 + 34632 0.7 0.482665
Target:  5'- cUGGAGGGC-CCUcaGCCUCUGguUGUCCu- -3'
miRNA:   3'- -AUCUCCCGaGGG--UGGAGAU--GCAGGuc -5'
28543 3' -58.1 NC_005946.1 + 36547 0.71 0.426457
Target:  5'- cAGGGGaGCUCCCugacccaugGCCUCU--GUCCAGu -3'
miRNA:   3'- aUCUCC-CGAGGG---------UGGAGAugCAGGUC- -5'
28543 3' -58.1 NC_005946.1 + 50959 0.74 0.297499
Target:  5'- ----cGGCUCCCGCCcccUCUACGUCUGGg -3'
miRNA:   3'- aucucCCGAGGGUGG---AGAUGCAGGUC- -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.